21-Jul-89 22:15:51-GMT,243600;000000000001 Received: from cunyvm.cuny.edu by net.bio.net (5.61/1.15) with SMTP id AA11464; Fri, 21 Jul 89 15:13:28 -0700 Message-Id: <8907212213.AA11464@net.bio.net> Received: from EMBL.BITNET by CUNYVM.CUNY.EDU (IBM VM SMTP R1.1) with BSMTP id 1403; Fri, 21 Jul 89 18:14:15 EDT Date: Sat, 22 Jul 89 00:00:48 To: syeh From: EMBL Network File Server Reply-To: General PostMaster Organisation: European Molecular Biology Laboratory Postal-Address: Meyerhofstrasse 1, 6900 Heidelberg, W. Germany Subject: Automatic response to : GET REFLIST:SEQ_ANALYSIS.DAT CC --------------------------------------------------------------------- CC CC ************** CC * SEQANALREF * CC ************** CC CC SEQUENCE ANALYSIS BIBLIOGRAPHIC REFERENCE DATA BANK CC Release: 9.00 / July 15, 1989 CC CC Compiled by: Amos Bairoch CC Department of Medical Biochemistry CC C.M.U. CC University of Geneva CC Switzerland CC CC EARN/BITNET: bairoch@cgecmu51 CC Arpanet : bairoch@bionet-20.bio.net CC CC --------------------------------------------------------------------- CC ID AAR8201 RA Aaronson R.P., Young J.F., Palese P.; RT "Oligonucleotide mapping: evaluation of its sensitivity by computer- RT simulation."; RL Nucleic Acids Res. 10:237-246(1982). KW NUCLEIC ACID. // ID ABR8801 RA Abagyan R.A., Maiorov V.N.; RT "A simple qualitative representation of polypeptide chain folds: RT comparison of protein tertiary structures."; RL J. Biomol. Struct. Dyn. 5:1267-1279(1988). KW PROTEIN; 3D STRUCTURE; REPRESENTATION. // ID ABR8802 RA Abagyan R.A., Maiorov V.N.; RT "Efficient method for computer-aided search for conformational RT similarities in data base of protein three-dimensional structures."; RL (In) Abstracts of: Application of data bases and microcomputers in RL molecular biology, pp.53-53, Jena (1988). KW PROTEIN; TERTIARY STRUCTURE. // ID ABR8401 RA Abarbanel R.M., Wieneke P.R., Mansfield E., Jaffe D.A., Brutlag D.L.; RT "Rapid searches for complex patterns in biological molecules."; RL Nucleic Acids Res. 12:263-280(1984). KW PATTERN. // ID ABE8701 RA Abola E.E., Bernstein F.C., Bryant S.H., Koetzle T.F., Weng J.; RT "Protein data bank."; RL (In) Crystallographic databases, Data Commission of the International RL Union of Crystallography, Bonn/Cambridge/Chester, (1987). KW PROTEIN; DATA BANK; 3D STRUCTURE. // ID ABE8501 RA Abola E.E., Bernstein F.C., Koetzle T.F.; RT "The protein data bank."; RL (In) The role of data in scientific progress, Glaeser P.S., Ed., RL pp139-144, Elsevier, North Holland, (1985). KW PROTEIN; DATA BANK; 3D STRUCTURE. // ID ABD8701 RA Abraham D.J., Leo A.J.; RT "Extension of the fragment method to calculate amino acid zwitterion RT and side chain partition coefficients."; RL Proteins: Structure, Function and Genetics 2:130-152(1987). KW PROTEIN; HYDROPHOBICITY; SCALE. // ID ABK8601 RA Abremski K., Ward D.F.; RT "PLASMID MAP: a microcomputer program for display and storage of plasmid RT data."; RL Gene 46:127-130(1986). KW NUCLEIC ACID; RESTRICTION MAP; PLASMID; PASCAL; IBM PC. // ID ADJ8201 RA Adams J., Rothman E.D.; RT "Estimations of phylogenetic relationships from DNA restriction RT patterns and selection of endonuclease cleavage sites."; RL Proc. Natl. Acad. Sci. USA 79:3560-3564(1982). KW PHYLOGENY. // ID ADT8601 RA Adrian T., Heinrich W.; RT "COMAP: a comigrating analysis program for estimating the relationship RT of adenoviruses on the genome level."; RL Nucleic Acids Res. 14:559-565(1986). KW NUCLEIC ACID. // ID ADA8801 RA Adzhubei A.A., Eisenmenger F., Tumanyan V.G., Brodzinski S., Esipova N.G.; RT "Classification of protein secondary structure types on the basis of RT protein data bank."; RL (In) Abstracts of: Application of data bases and microcomputers in RL molecular biology, pp.51-51, Jena (1988). KW PROTEIN; SECONDARY STRUCTURE. // ID AHK8701 RA Ahern K.; RT "GENEius: powerful RNA structure analysis in an evolving package."; RL Biotechnology Software 11:15-19(1987). KW NUCLEIC ACID; SOFTWARE PACKAGE; APPLE II. // ID AKN8801 RA Akimova N.I., Alexandrov A.A., Nitsai O.V., Palmbakh G.G., Sedov A.E., RA Vitzon L.A., Zhangheldina G.T., Golovanov E.I., Sprizhitsky Y.A., RA Shepelev V.A.; RT "GENEXPESS, database of primary biopolymer structures."; RL (In) Abstracts of: Application of data bases and microcomputers in RL molecular biology, pp.18-18, Jena (1988). KW NUCLEIC ACID; PROTEIN; DATA BANK. // ID ALA8801 RA Alexandrov A.A.; RT "The development of databases for biopolymer structures and working RT procedures in 1985-1988: major results and trends."; RL (In) Abstracts of: Application of data bases and microcomputers in RL molecular biology, pp.14-15, Jena (1988). KW NUCLEIC ACID; PROTEIN; DATA BANK. // ID ALL8801 RA Allison L., Yee C.N.; RT "Restriction mapping is in separation theory."; RL CABIOS 4:97-101(1988). KW NUCLEIC ACID; RESTRICTION MAP. // ID ALH8301 RA Almagor H.; RT "A Markov analysis of DNA sequences."; RL J. Theor. Biol. 104:633-6xx(1983). KW NUCLEIC ACID. // ID ALR8601 RA Altman R.B., Jardetzky O.; RT "New strategies for the determination of macromolecular structure in RT solution."; RL J. Biochem. 100:1403-1423(1986). // ID ALS8902 RA Altschul S.F., Carroll R.J., Lipman D.J.; RT "Weights for data related by a tree."; RL J. Mol. Biol. 207:647-653(1989). KW PHYLOGENY; MULTIPLE ALIGNMENT. // ID ALS8501 RA Altschul S.F., Erickson B.W.; RT "Recognition of good alignments of segments from two DNA or RNA."; RL Fed. Proc. 44:1086-1086(1985). KW NUCLEIC ACID; ALIGNMENT. // ID ALS8502 RA Altschul S.F., Erickson B.W.; RT "Significance for nucleotide sequence alignments: a method for random RT sequence permutation that preserves dinucleotide and codon usage."; RL Mol. Biol. Evol. 2:526-538(1985). KW NUCLEIC ACID; ALIGNMENT. // ID ALS8601 RA Altschul S.F., Erickson B.W.; RT "Optimal sequence alignment using affine gap costs."; RL Bull. Math. Biol. 48:603-616(1986). KW ALIGNMENT. // ID ALS8602 RA Altschul S.F., Erickson B.W.; RT "A nonlinear measure of subalignment similarity and its significance RT levels."; RL Bull. Math. Biol. 48:617-632(1986). KW ALIGNMENT. // ID ALS8603 RA Altschul S.F., Erickson B.W.; RT "Locally optimal subalignments using nonlinear similarity functions."; RL Bull. Math. Biol. 48:633-660(1986). KW ALIGNMENT. // ID ALS8801 RA Altschul S.F., Erickson B.W.; RT "Significance levels for biological sequence comparison using non-linear RT similarity functions."; RL Bull. Math. Biol. 50:77-92(1988). KW ALIGNMENT. // ID ALS8901 RA Altschul S.F., Lipman D.J.; RT "Tree, stars, and multiple biological sequence alignment."; RL SIAM J. Appl. Math. 49:197-209(1989). KW PHYLOGENY; MULTIPLE ALIGNMENT. // ID ANC7301 RA Anfinsen C.B.; RT "Principles that govern the folding of protein chains."; RL Science 181:223-230(1973). KW PROTEIN; 3D STRUCTURE; THEORY. // ID ANC7501 RA Anfinsen C.B., Scheraga H.A.; RT "Experimental and theoretical aspects of protein folding."; RL Adv. Prot. Chem. 29:205-300(1975). KW PROTEIN; 3D STRUCTURE; THEORY. // ID ARR8401 RA Arentzen R., Ripka W.C.; RT "Introduction of restriction enzyme sites in protein-coding DNA RT sequences by site-specific mutagenesis not affecting the amino acid RT sequence: a computer program."; RL Nucleic Acids Res. 12:777-787(1984). KW NUCLEIC ACID; PROTEIN; RESTRICTION SITE. // ID ARP8701 RA Argos P.; RT "A sensitive procedure to compare amino acid sequences."; RL J. Mol. Biol. 193:385-396(1987). KW PROTEIN; ALIGNMENT. // ID ARP8702 RA Argos P.; RT "Analysis of sequence-similar pentapeptides in unrelated protein RT tertiary structures: strategies for protein folding and a guide for RT site-directed mutagenesis."; RL J. Mol. Biol. 197:331-348(1987). KW PROTEIN; 3D STRUCTURE; PREDICTION. // ID ARP7801 RA Argos P., Hanei M., Garavito R.M.; RT "The Chou-Fasman secondary structure prediction method with an extended RT data base."; RL FEBS Letters 93:19-24(1978). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID ARP8301 RA Argos P., Hanei M., Wilson J.M., Kelley W.N.; RT "A possible nucleotide-binding domain in the tertiary fold of RT phosphoribosyltransferases."; RL J. Biol. Chem. 258:6450-6457(1983). KW PROTEIN. // ID ARP8801 RA Argos P., McCaldon P.; RT "Theoretical and computer analysis of protein primary sequences: structure RT comparison and prediction."; RL (In) Genetic Engineering, Principle and Methods, Setlow J.K., Ed., RL 10:21-66, Plenum Press, New-York (1988). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION; REVIEW. // ID ARP8201 RA Argos P., Palau J.; RT "Amino acid distribution in protein secondary structures."; RL Int. J. Pept. Prot. Res. 19:380-393(1982). KW PROTEIN; SECONDARY STRUCTURE. // ID ARP8601 RA Argos P., Rao J.K.M.; RT "Prediction of protein structure."; RL Methods in Enzymology 130:185-207(1986). KW PROTEIN; SECONDARY STRUCTURE; 3D STRUCTURE; PREDICTION; REVIEW. // ID ARP8202 RA Argos P., Rao J.K.M., Hargrave P.A.; RT "Structural prediction of membrane-bound proteins."; RL Eur. J. Biochem. 128:565-575(1982). KW PROTEIN. // ID ARP7901 RA Argos P., Rossman M.G., Grau U.M., Zuber H., Frank G., Tratschin J.D.; RT "Thermal stability and protein structure."; RL Biochemistry 18:5698-5703(1979). KW PROTEIN. // ID ARP7601 RA Argos P., Schwarz J., Schwarz J.; RT "An assessment of protein secondary structure prediction methods based RT on amino acid sequences."; RL Biochim. Biophys. Acta 439:261-273(1976). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID ARP8302 RA Argos P., Siezen R.J.; RT "Structural homology of lens crystallins. A method to detect protein RT structural homology from primary sequences."; RL Eur. J. Biochem. 131:143-148(1983). KW PROTEIN. // ID ARJ8601 RA Arnold J., Eckenrode V.K., Lemke K., Phillips G.J., Schaeffer S.W.; RT "A comprehensive package for DNA sequence analysis in FORTRAN IV for RT the PDP-11."; RL Nucleic Acids Res. 14:239-254(1986). KW NUCLEIC ACID; SOFTWARE PACKAGE; VOICE ENTRY; FORTRAN. // ID ATT8601 RA Atilgan T., Nicholas H.B. Jr., McClain W.H.; RT "A statistical method for correlating tRNA sequence with amino acid RT specificity."; RL Nucleic Acids Res. 14:375-380(1986). KW NUCLEIC ACID; TRNA; STATISTIC. // ID ATM8801 RA Attimonelli M., Lanave C., Liuni S., Pesole G.; RT "MERGE: a software package for generating a single data-base starting RT from EMBL and GenBank collections."; RL Nucleic Acids Res. 16:1681-1682(1988). KW NUCLEIC ACID; DATA BANK. // ID AUJ8601 RA Augen J., Wold F.; RT "How much sequence information is needed for the regulation of amino- RT terminal acetylation of eukaryotic proteins."; RL Trends in Biochem. Sci. 11:494-497(1986). KW PROTEIN. // ID AUI8901 RA Auger I.E., Lawrence C.E.; RT "Algorithms for the optimal identification of segment neighborhoods."; RL Bull. Math. Biol. 51:39-54(1989). KW PROTEIN; ALGORITHM. // ID AUP8201 RA Auron P.E., Rindone W.P., Vary C.P.H., Celentano J.J., Vournakis J.N.; RT "Computer-aided prediction of RNA secondary structures."; RL Nucleic Acids Res. 10:403-419(1982). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID BAV8801 RA Babenko V.E., Sagitov V.R.; RT "The vectors data base."; RL (In) Abstracts of: Application of data bases and microcomputers in RL molecular biology, pp.26-26, Jena (1988). KW NUCLEIC ACID; DATA BANK. // ID BAR8201 RA Bach R., Friedland P., Brutlag D.L., Kedes L.H.; RT "MAXAMIZE: A DNA sequencing strategy advisor."; RL Nucleic Acids Res. 10:295-304(1982). KW NUCLEIC ACID; EXPERT SYSTEM. // ID BAR8401 RA Bach R., Iwasaki Y., Friedland P.; RT "Intelligent computational assistance for experiment design."; RL Nucleic Acids Res. 12:11-29(1984). KW EXPERT SYSTEM. // ID BAA8601 RA Bachmair A., Finley D., Varshavsky A.; RT "In vivo half-life of a protein is a function of its amino-terminal RT residue."; RL Science 234:179-186(1986). KW PROTEIN. // ID BAD8601 RA Bacon D.J., Anderson W.F.; RT "Multiple sequence alignment."; RL J. Mol. Biol. 191:153-161(1986). KW MULTIPLE ALIGNMENT. // ID BAW8601 RA Bains W.; RT "MULTAN: a program to align multiple DNA sequences."; RL Nucleic Acids Res. 14:159-177(1986). KW NUCLEIC ACID; MULTIPLE ALIGNMENT. // ID BAW8801 RA Bains W.; RT "AXE: a program for isolating short segments of long DNA sequences."; RL CABIOS 4:491-492(1988). KW NUCLEIC ACID. // ID BAW8901 RA Bains W.; RT "MULTAN (2), A multiple string alignment program for nucleic acids and RT proteins."; RL CABIOS 5:51-52(1989). KW NUCLEIC ACID; PROTEIN; MULTIPLE ALIGNMENT. // ID BAA8201 RA Bairoch A.; RT "Suggestion to research groups working on protein and peptide RT sequence."; RL Biochem. J. 203:527-528(1982). KW PROTEIN. // ID BAM8501 RA Barber M.J., Eichler D.C.; RT "Word-processing software as a useful tool for searching nucleotide RT sequences for restriction enzymes sites."; RL Biotechniques 3:272-274(1985). KW NUCLEIC ACID; RESTRICTION SITE; WORD PROCESSOR. // ID BAJ8801 RA Barciszewski J., Joachimiak A., Twardowski T.; RT "Transfer and ribosomal 5S ribonucleic acids data bases."; RL (In) Abstracts of: Application of data bases and microcomputers in RL molecular biology, pp.42-42, Jena (1988). KW NUCLEIC ACID; DATA BANK; RRNA. // ID BAC7201 RA Barker W.C., Dayhoff M.O.; RT "Detecting distant relationships: computer methods and results."; RL (In) Atlas of Protein Sequence and Structure, 5:101-110(1972), Nat. RL Biomed. Res. Found., Washington D.C. KW PROTEIN; REVIEW. // ID BAC8601 RA Barker W.C., Hunt L.T., George D.G.; RT "Research uses of protein sequence databases."; RL Protein, Nucleic Acid and Enzyme 29:163-176(1986). KW PROTEIN; DATA BANK. CC In Japanese. // ID BAC8801 RA Barker W.C., Hunt L.T., George D.G.; RT "Identifying domains in protein sequences."; RL Protein Seq. Data Anal. 1:363-373(1988). KW PROTEIN. // ID BAC8501 RA Barker W.C., Hunt L.T., George D.G., Orcutt B.C.; RT "A resource for protein identification."; RL (In) The role of data in scientific progress, Glaeser P.S., Ed., RL pp127-133, Elsevier, North Holland, (1985). KW PROTEIN; DATA BANK. // ID BAC8701 RA Barker W.C., Hunt L.T., Seibel-Ross E., Yeh L.-S., George D.G.; RT "Identifying protein domains using consensus sequences."; RL Fed. Proc. 46:2232-2232(1987). KW PROTEIN. // ID BAC8602 RA Barker W.C., Johnson G.C., Hunt L.T., George D.G.; RT "Similar domains in different proteins: detection and significance."; RL Protein, Nucleic Acid and Enzyme 29:54-68(1986). KW PROTEIN. CC In Japanese. // ID BAC7801 RA Barker W.C., Ketcham L.K., Dayhoff M.O.; RT "A comprehensive examination of protein sequences for evidence of RT internal gene duplication."; RL J. Mol. Evol. 10:265-281(1978). KW PROTEIN; INTERNAL DUPLICATION. // ID BAE8201 RA Barkowsky E.V.; RT "Prediction of the secondary structure of globular proteins by their RT amino acid sequence."; RL Acta Biol. Med. Ger. 41:751-758(1982). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID BAG8701 RA Barton G.J., Sternberg M.J.E.; RT "Evaluation and improvements in the automatic alignment of protein RT sequences."; RL Protein Engineering 1:89-94(1987). KW PROTEIN; ALIGNMENT. // ID BAF8301 RA Bastie-Sigeac F., Bellis M., Roizes G.; RT "A method for selecting the coding DNA for a protein of known RT sequence. II Use of obligatory restriction sites."; RL Biochimie 65:77-82(1983). KW NUCLEIC ACID; PROTEIN; RESTRICTION SITE; CODING SEQUENCE IDENTIFICATION. // ID BEJ8601 RA Beckmann J.S., Brendel V., Trifonov E.N.; RT "Intervening sequences exhibit distinct vocabulary."; RL J. Biomol. Struct. Dyn. 4:391-400(1986). KW NUCLEIC ACID; INTRON. // ID BEB8801 RA Bellon B.; RT "Construction of restriction maps."; RL CABIOS 4:111-116(1988). KW NUCLEIC ACID; RESTRICTION MAP. // ID BEB8802 RA Bellon B.; RT "Apple MacIntosh programs for nucleic and protein sequence analyses."; RL Nucleic Acids Res. 16:1837-1846(1988). KW NUCLEIC ACID; PROTEIN; SOFTWARE PACKAGE; APPLE MACINTOSH; PASCAL. // ID BEF7701 RA Bernstein F.C., Koetzle T.F., Williams G.J.B., Meyer E.F., Brice M.D., RA Rodgers J.R., Kennard O., Shimanouchi T., Tasumi M.; RT "The protein data bank: a computer-based archival file for RT macromolecular structures."; RL J. Mol. Biol. 112:535-542(1977). KW PROTEIN; DATA BANK; 3D STRUCTURE. // ID BEM8701 RA Bernstein M.; RT "Using spreadsheet languages to understand sequence analysis RT algorithms."; RL CABIOS 3:217-221(1987). KW SPREADSHEET. // ID BEM8702 RA Bernstein M.; RT "Reducing the man - machine barrier: the sequence analysis workbench."; RL CABIOS 3:229-232(1987). // ID BEW7401 RA Beyer W.A., Stein M.L., Smith T.F., Ulam S.M.; RT "A molecular sequence metric and evolutionary trees."; RL Math. Biosci. 19:9-25(1974). KW PHYLOGENY. // ID BIJ8401 RA Bibb M.J., Findlay P.R., Johnson M.W.; RT "The relationship between base composition and codon usage in RT bacterial genes and its use for the simple and reliable identification RT of protein-coding sequences."; RL Gene 30:157-166(1984). KW NUCLEIC ACID; CODING SEQUENCE IDENTIFICATION. // ID BIE8801 RA Bicknell E.J., Rada R., Davidson S., Stander R.; RT "Mapping from GenBank to MEDLINE."; RL Nucleic Acids Res. 16:1667-1680(1988). KW NUCLEIC ACID; DATA BANK. // ID BIH8801 RA Bilofsky H.S., Burks C.; RT "The GenBank genetic sequence data bank."; RL Nucleic Acids Res. 16:1861-1863(1988). KW NUCLEIC ACID; DATA BANK. // ID BIH8601 RA Bilofsky H.S., Burks C., Fickett J.W., Goad W.B., Lewitter F.I., RA Rindone W.P., Swindell C.D., Tung C.-S.; RT "The GenBank genetic sequence databank."; RL Nucleic Acids Res. 14:1-4(1986). KW NUCLEIC ACID; DATA BANK. // ID BIP8401 RA Biro P.A.; RT "DNA sequence handling programs in BASIC for home computers."; RL Nucleic Acids Res. 12:627-631(1984). KW NUCLEIC ACID; BASIC. // ID BIM8401 RA Bishop M.J.; RT "ZSEQ: an interactive DNA sequence analysis program designed for RT microcomputers."; RL Biochem. Soc. Trans. 12:1015-1017(1984). KW NUCLEIC ACID. // ID BIM8402 RA Bishop M.J.; RT "ZPEP: an interactive protein sequence analysis program designed for RT microcomputers."; RL Biochem. Soc. Trans. 12:1017-1017(1984). KW PROTEIN. // ID BIM8403 RA Bishop M.J.; RT "Software for molecular biology. I. Databases and search programs."; RL BioEssays 1:29-31(1984). KW NUCLEIC ACID; PROTEIN; DATA BANK; SOFTWARE PACKAGE; REVIEW. // ID BIM8404 RA Bishop M.J.; RT "Software for molecular biology. II. Restriction mapping and DNA RT sequencing programs."; RL BioEssays 1:75-77(1984). KW NUCLEIC ACID; SOFTWARE PACKAGE; REVIEW; RESTRICTION MAP. // ID BIM8405 RA Bishop M.J.; RT "Software for molecular biology. III. General analysis programs RT classified according to the computer on which they run."; RL BioEssays 1:126-129(1984). KW NUCLEIC ACID; SOFTWARE PACKAGE; REVIEW; IBM-PC; APPLE II; VAX. // ID BIM8501 RA Bishop M.J.; RT "Software for molecular biology. IV. Power where it is needed: RT workstations and networks."; RL BioEssays 2:218-221(1985). KW NUCLEIC ACID; SOFTWARE PACKAGE; REVIEW. // ID BIM8502 RA Bishop M.J., Friday A.E.; RT "Evolutionary trees from nucleic acid and protein sequences."; RL Proc. R. Soc. Lond. B 226:271-302(1985). KW PHYLOGENY. // ID BIM8701 RA Bishop M.J., Friday A.E., Thompson E.A.; RT "Inference of evolutionary relationships."; RL (In) Nucleic acid and protein sequence analysis a practical approach., RL Bishop M.J., Rawlings C.J., Eds., pp359-385, IRL Press, Oxford, (1987). KW PHYLOGENY; REVIEW. // ID BIM8702 RA Bishop M.J., Ginsburg M., Rawlings C.J., Wakeford R.; RT "Molecular sequence databases."; RL (In) Nucleic acid and protein sequence analysis a practical approach., RL Bishop M.J., Rawlings C.J., Eds., pp359-385, IRL Press, Oxford, (1987). KW NUCLEIC ACID; PROTEIN; DATA BANK; REVIEW. // ID BIM8406 RA Bishop M.J., Thompson E.A.; RT "Fast computer search for similar DNA sequences."; RL Nucleic Acids Res. 12:5471-5475(1984). KW NUCLEIC ACID; SIMILARITY SEARCH. // ID BIM8602 RA Bishop M.J., Thompson E.A.; RT "Maximum likelihood alignment of DNA sequences."; RL J. Mol. Biol. 190:159-165(1986). KW PHYLOGENY; NUCLEIC ACID; ALIGNMENT. // ID BLB8601 RA Blaisdell B.E.; RT "A measure of the similarity of sets of sequences not requiring sequence RT alignment."; RL Proc. Natl. Acad. Sci. USA 83:5155-5159(1986). KW NUCLEIC ACID; ALGORITHM. // ID BLS8601 RA Blake S.D., Glorioso J.C.; RT "MSEQ: a microcomputer-based approach to the analysis, display, and RT prediction of protein structure."; RL Biotechniques 4:448-460(1986). KW PROTEIN. // ID BLR8201 RA Blanken R.L., Klotz L.C., Hinnebusch A.G.; RT "Computer comparison of new and existing criteria for constructing RT evolutionary trees from sequence data."; RL J. Mol. Evol. 19:9-19(1982). KW PHYLOGENY. // ID BLP8601 RA Blanz P.A., Kleindienst S.; RT "A computer program for comparative analysis of nucleic acid RT sequences."; RL Nucleic Acids Res. 14:537-541(1986). KW NUCLEIC ACID. // ID BLF8401 RA Blattner F.R., Schroeder J.L.; RT "A computer package for DNA sequence analysis."; RL Nucleic Acids Res. 12:615-617(1984). KW NUCLEIC ACID; SOFTWARE PACKAGE. // ID BLS8501 RA Blose S.H., Hamburger S.A.; RT "Computer-analyzed high resolution two-dimensional gel RT electrophoresis: a new window for protein research."; RL Biotechniques 3:232-2236(1985). KW PROTEIN. // ID BLT8801 RA Blundell T.L., Carney D., Gardner S., Hayes F., Howlin B., Hubbard T.J.P., RA Overington J., Singh D.A., Sibanda B.L., Sutcliffe M.; RT "Knowledge-based protein modelling and design."; RL Eur. J. Biochem. 172:513-520(1988). KW PROTEIN; 3D STRUCTURE; PREDICTION. // ID BLT8501 RA Blundell T.L., Sternberg M.J.E.; RT "Computer-aided design in protein engineering."; RL Trends in Biotechnology 3:228-235(1985). KW PROTEIN; REVIEW. // ID BLT8701 RA Blundell T.L., Sibanda B.L., Sternberg M.J.E., Thornton J.M.; RT "Knowledge-based prediction of protein structures and the design of RT novel molecules."; RL Nature 326:347-352(1987). KW PROTEIN; 3D STRUCTURE; PREDICTION; EXPERT SYSTEM. // ID BLM8201 RA Blumenthal R.M., Rice P.J., Roberts R.J.; RT "Computer programs for nucleic acid sequence manipulations."; RL Nucleic Acids Res. 10:91-101(1982). KW NUCLEIC ACID. // ID BOM8601 RA Boguski M.S., Freeman M., Elshourbagy N.A., Taylor J.M., Gordon J.I.; RT "On computer-assisted analysis of biological sequences: proline RT punctuation. consensus sequences and apolipoprotein repeats."; RL J. Lip. Res. 27:1011-1034(1986). KW PROTEIN; REVIEW. // ID BOH8801 RA Bohr H., Bohr J., Brunak S., Cotterill R.M.J., Lautrup B., Norskov L., RA Olsen O.H., Petersen S.B.; RT "Protein secondary structure and homology by neural networks."; RL FEBS Letters 241:223-228(1988). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION; ARTIFICAL INTELLIGENCE. // ID BOP7401 RA Borer P.N., Dengler B., Tinoco I. Jr., Uhlenbeck O.C.; RT "Stability of ribonucleic double-stranded helices."; RL J. Mol. Biol. 86:843-853(1974). KW NUCLEIC ACID. // ID BOP8801 RA Bork P., Grunwald C.; RT "Pattern search in protein sequence data bases: detection of different RT nucleotides-binding sites."; RL (In) Abstracts of: Application of data bases and microcomputers in RL molecular biology, pp.45-45, Jena (1988). KW PROTEIN; PATTERN; FORTRAN. // ID BOJ8801 RA Bossinger J.A.; RT "The Annotator's Assistant: an expert system for direct submission of RT genetic sequence data."; RL CABIOS 4:197-202(1988). KW NUCLEIC ACID; DATA BANK; EXPERT SYSTEM; IBM-PC. // ID BOD8701 RA Boswell D.R.; RT "Sequence alignment by word processor."; RL Trends in Biochem. Sci. 12:279-280(1987). KW ALIGNMENT; WORD PROCESSOR. // ID BOD8801 RA Boswell D.R.; RT "A program for template matching of protein sequences."; RL CABIOS 4:345-350(1988). KW PROTEIN; PATTERN; ALIGNMENT. // ID BOD8401 RA Boswell D.R., McLachlan A.D.; RT "Sequence comparison by exponentially-damped alignment."; RL Nucleic Acids Res. 12:457-464(1984). KW ALIGNMENT. // ID BOL8801 RA Bougueleret L., Tekaia F., Sauvaget I., Claverie J.-M.; RT "Objective comparison of exon and intron sequences by means of RT 2-dimensional data analysis methods."; RL Nucleic Acids Res. 16:1729-1738(1988). KW NUCLEIC ACID; SPLICE JUNCTIONS. // ID BRE8801 RA Breen E.J., Browne L.H., Glue L., Williams K.L.; RT "The DNA rodent: a portable hand held DNA sequence reader."; RL CABIOS 4:217-217(1988). KW NUCLEIC ACID; GEL SCANNING; IBM-PC. // ID BRC8501 RA Breitenberger C.A., Rajbhandary U.L.; RT "Some highlights of mitochondrial research based on analyses of RT Neurospora crassa mitochondrial DNA."; RL Trends in Biochem. Sci. 10:478-483(1985). KW NUCLEIC ACID. // ID BRV8401 RA Brendel V., Trifonov E.N.; RT "A computer algorithm for testing potential prokaryotic terminators."; RL Nucleic Acids Res. 12:4411-4427(1984). KW NUCLEIC ACID. // ID BRV8501 RA Brendel V., Trifonov E.N.; RT "Computer-aided mapping of DNA-protein interaction sites."; RL (In) The role of data in scientific progress, Glaeser P.S., Ed., RL pp115-118, Elsevier, North Holland, (1985). KW NUCLEIC ACID. // ID BRJ8901 RA Broom J.E., Stockwell P.A., Hill D.F.; RT "GELENT: a sequence gel entry program for keyboard and sonic digitizer RT input."; RL CABIOS 5:155-157(1989). KW NUCLEIC ACID; DATA ENTRY; VAX; PASCAL. // ID BRR8801 RA Bruccoleri R.E., Heinrich G.; RT "An improved algorithm for nucleic acid secondary structure display."; RL CABIOS 4:167-173(1988). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; REPRESENTATION; VAX; C LANGUAGE. // ID BRD8801 RA Brutlag D.L.; RT "Expert system simulations as active learning environments."; RL (In) Biomolecular data: A resource in transition, Colwell R.R., Ed., RL pp185-188, Oxford University Press, Oxford, (1988). KW NUCLEIC ACID; EXPERT SYSTEM. // ID BRD8201 RA Brutlag D.L., Clayton J., Friedland P., Kedes L.H.; RT "SEQ: a nucleotide sequence analysis and recombination system."; RL Nucleic Acids Res. 10:279-294(1982). KW NUCLEIC ACID. // ID BRD8701 RA Brutlag D.L., Kristofferson D.; RT "BIONET: an NIH computer resource for molecular biology."; RL (In) Proceedings of the CODATA Workshop, May 1987. KW COMPUTING RESOURCE; BIONET. // ID BRS8701 RA Bryant S.H., Sternberg M.J.E.; RT "Comparison of protein structural profiles by interactive computer RT graphics."; RL J. Mol. Graphics 5:4-7(1987). KW PROTEIN; 3D STRUCTURE; REPRESENTATION. // ID BUP8401 RA Bucher P., Bryan B.; RT "Signal search analysis: a new method to localize and characterize RT functionally important DNA sequences."; RL Nucleic Acids Res. 12:287-305(1984). KW NUCLEIC ACID; PATTERN. // ID BUP8801 RA Bucher P., Trifonov E.N.; RT "CCAAT box revisited: bidirectionality, location and context."; RL J. Biomol. Struct. Dyn. 5:1231-1236(1988). KW NUCLEIC ACID; PROMOTERS; PATTERN. // ID BUC8601 RA Bucholtz C.A., Reisner A.H.; RT "MBIS - an integrated system for the retrieval and analyses of RT sequence data from nucleic acids and proteins."; RL Nucleic Acids Res. 14:265-272(1986). KW NUCLEIC ACID; PROTEIN; SOFTWARE PACKAGE; FORTRAN; VAX. // ID BUH7401 RA Bull H.B., Breese K.; RT "Surface tension of amino acid solutions: a hydrophobicity scale of RT the amino acid residues."; RL Arch. Biochem. Biophys. 161:665-670(1974). KW PROTEIN; HYDROPHOBICITY; SCALE. // ID BUT8601 RA Burglin T.R.; RT "SEQGEL: a versatile and comfortable DNA editor which supports a RT special keyboard and a speech synthesizer."; RL CABIOS 2:99-101(1986). KW NUCLEIC ACID; DATA ENTRY; SPEECH SYNTHESIZER. // ID BUC8501 RA Burks C., Fickett J.W., Goad W.B., Kanehisa M.I., Lewitter F.I., RA Rindone W.P., Swindell C.D., Tung C.-S., Bilofsky H.S.; RT "The GenBank nucleic acid sequence database."; RL CABIOS 1:225-233(1985). KW NUCLEIC ACID; DATA BANK. // ID BUC8701 RA Burks C., Fickett J.W., Goad W.B.; RT "GenBank status report."; RL Science 235:267-268(1987). KW NUCLEIC ACID; DATA BANK. // ID BUL8601 RA Burnett L.; RT "Development of a superior strategy for computer-assisted nucleotide RT sequence analysis."; RL Nucleic Acids Res. 14:47-55(1986). KW NUCLEIC ACID. // ID BUL8501 RA Burnett L., Basten A., Hensley W.J.; RT "An exhaustive tree-searching algorithm for high resolution computer- RT assisted nucleotide sequence analysis."; RL CABIOS 1:153-160(1985). KW NUCLEIC ACID; ALGORITHM. // ID BUL8502 RA Burnett L., Basten A., Hensley W.J.; RT "The SEQANAL and SEQTALK programs: a new method of access to high- RT resolution nucleotide sequence comparison and analysis programs from a RT remote laboratory mini- or microcomputer."; RL CABIOS 1:241-247(1985). KW NUCLEIC ACID. // ID BUL8602 RA Burnett L., Basten A., Hensley W.J.; RT "Should nucleotide sequence analyzing computer algorithms always RT extend homologies by extending homologies ?"; RL Nucleic Acids Res. 14:425-430(1986). KW NUCLEIC ACID. // ID BUB8203 RA Busetta B.; RT "Improving the residual representation of proteins."; RL J. Theor. Biol. 98:621-635(1982). KW PROTEIN; TERTIARY STRUCTURE; REPRESENTATION. // ID BUB8701 RA Busetta B.; RT "The use of folding patterns in the prediction of protein topologies."; RL Biochim. Biophys. Acta 916:54-65(1987). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID BUB8801 RA Busetta B.; RT "The use of folding patterns in the search of protein structural RT similarities: a three-dimensional model of phosphoribosyl RT transferases."; RL Biochim. Biophys. Acta 957:21-33(1988). KW PROTEIN; 3D STRUCTURE; PREDICTION. // ID BUB8201 RA Busetta B., Barrans Y.; RT "The prediction of protein topologies."; RL Biochim. Biophys. Acta 709:73-83(1982). KW PROTEIN. // ID BUB8401 RA Busetta B., Barrans Y.; RT "The prediction of protein domains."; RL Biochim. Biophys. Acta 790:117-124(1984). KW PROTEIN. // ID BUB8202 RA Busetta B., Hospital M.; RT "An analysis of the prediction of secondary structures."; RL Biochim. Biophys. Acta 701:111-118(1982). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID BUA8701 RA Bussard A.; RT "An international biological data bank: hybridoma data bank. General RT considerations on these types of banks."; RL (In) Biotechnology Information '86, Wakeford R., Ed., pp123-136, RL IRL Press, Oxford, (1987). KW NUCLEIC ACID; DATA BANK. // ID CAE8901 RA Cabot E.; RT "A sequence editor for microcomputer users."; RL Trends in Biochem. Sci. 14:14-14(1989). KW NUCLEIC ACID; PROTEIN; DATA ENTRY. // ID CAC8201 RA Calladine C.R.; RT "Mechanics of sequence-dependent stacking of bases in B-DNA."; RL J. Mol. Biol. 161:343-352(1982). KW NUCLEIC ACID; DNA; SECONDARY STRUCTURE. // ID CAG8801 RA Cameron G.N.; RT "The EMBL data library."; RL Nucleic Acids Res. 16:1865-1867(1988). KW NUCLEIC ACID; PROTEIN; DATA BANK. // ID CAJ8701 RA Campione-Piccardo J.; RT "Graphic and DNA sequence interface for the pCP123 database system RT for managing recombinant DNA data."; RL CABIOS 3:359-359(1987). KW NUCLEIC ACID; SOFTWARE PACKAGE; SPREADSHEET. // ID CAJ8801 RA Campione-Piccardo J.; RT "Algorithms for determining the fate of sites and domain boundaries in RT computer simulations of recombinant DNA procedures."; RL CABIOS 4:259-264(1988). KW NUCLEIC ACID; ALGORITHM. // ID CAJ8802 RA Campione-Piccardo J., Moro R.; RT "Modification of DNA ends and detection of restriction enzyme RT recognition sequences in their ligated junctions."; RL CABIOS 4:215-216(1988). KW NUCLEIC ACID; RESTRICTION SITE. // ID CAJ8601 RA Campione-Piccardo J., Ruben M.; RT "An integrated software system for microcomputer management of RT recombinant DNA data."; RL Nucleic Acids Res. 14:571-574(1986). KW NUCLEIC ACID; SOFTWARE PACKAGE; SPREADSHEET. // ID CAG8701 RA Cannon G.C.; RT "Sequence analysis on microcomputers."; RL Science 238:97-103(1987). KW PROTEIN; NUCLEIC ACID; REVIEW. // ID CAC6801 RA Cantor C.R.; RT "The occurrence of gaps in protein sequences."; RL Biochem. Biophys. Res. Commun. 31:410-416(1968). KW PROTEIN; HOMOLOGY; ALIGNMENT. // ID CAR8801 RA Carhart R.E., Cash H.D., Moore J.F.; RT "StrateGene: object-oriented programming in molecular biology."; RL CABIOS 4:3-9(1988). KW NUCLEIC ACID; RESTRICTION MAP; EXPERT SYSTEM. // ID CAP8401 RA Caron P.R.; RT "KLONER: a computer program to simulate recombinant DNA strategies by RT restriction map manipulation."; RL Nucleic Acids Res. 12:731-737(1984). KW NUCLEIC ACID; RESTRICTION MAP. // ID CAH8801 RA Carrillo H., Lipman D.J.; RT "The multiple sequence alignment problem in biology."; RL SIAM J. Appl. Math. 48:1073-1082(1988). KW MULTIPLE ALIGNMENT. // ID CAM8601 RA Carson M., Bugg C.E.; RT "Algorithm for ribbon models of proteins."; RL J. Mol. Graphics 4:121-122(1986). KW PROTEIN; 3D STRUCTURE; REPRESENTATION; ALGORITHM. // ID CET8301 RA Cech T.R., Tanner N.K., Tinoco I. Jr., Weir B.W., Zuker M., RA Perlman P.S.; RT "Secondary structure of the Tetrahymena ribosomal RNA intervening RT sequence: structural homology with fungal mitochondrial intervening RT sequences."; RL Proc. Natl. Acad. Sci. USA 80:3903-3907(1983). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID CER8801 RA Cedergren R.J., Gautheret D., Lapalme G., Major F.; RT "A secondary and tertiary editor for nucleic acids."; RL CABIOS 4:143-146(1988). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; REPRESENTATION; IBM-PC. // ID CHH8501 RA Chen H.R., Barker W.C.; RT "The Protein Identification Resource and its applications."; RL Trends in Genetics 1:221-223(1985). KW PROTEIN; DATA BANK. // ID CHC7401 RA Chothia C.; RT "Hydrophobic bonding and accessible surface area in proteins."; RL Nature 248:338-339(1974). KW PROTEIN; 3D STRUCTURE; THEORY. // ID CHC7501 RA Chothia C.; RT "Structural invariants in protein folding."; RL Nature 254:304-308(1975). KW PROTEIN; 3D STRUCTURE; THEORY. // ID CHC7601 RA Chothia C.; RT "The nature of the accessible and buried surfaces in proteins."; RL J. Mol. Biol. 105:1-14(1976). KW PROTEIN; 3D STRUCTURE; THEORY. // ID CHC8401 RA Chothia C.; RT "Principles that determine the structure of proteins."; RL Ann. Rev. Biochem. 53:537-572(1984). KW PROTEIN; 3D STRUCTURE; THEORY; REVIEW. // ID CHC8501 RA Chothia C., Lesk A.M.; RT "Helix movements in proteins."; RL Trends in Biochem. Sci. 10:116-118(1985). KW PROTEIN; SECONDARY STRUCTURE; 3D STRUCTURE; THEORY; REVIEW. // ID CHC8601 RA Chothia C., Lesk A.M.; RT "The relationship between the divergence of sequence and structure in RT proteins."; RL EMBO J. 5:823-826(1986). KW PROTEIN. // ID CHC8602 RA Chothia C., Lesk A.M.; RT "The use of sequence homologies to predict protein structures."; RL (In) Computer graphics and molecular modeling, Fletterick R., RL Zoller M., Eds., pp33-37, Cold Spring Harbor Laboratory, New-York, (1986). KW PROTEIN. // ID CHC7701 RA Chothia C., Levitt M., Richardson D.; RT "Structures of proteins: packing of alpha-helices and pleated sheets."; RL Proc. Natl. Acad. Sci. USA 74:4130-4134(1977). KW PROTEIN; SECONDARY STRUCTURE; 3D STRUCTURE; THEORY. // ID CHP7401 RA Chou P.Y., Fasman G.D.; RT "Prediction of protein conformation."; RL Biochemistry 13:222-245(1974). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID CHP7701 RA Chou P.Y., Fasman G.D.; RT "Beta-turns in protein."; RL J. Mol. Biol. 115:135-175(1977). KW PROTEIN; SECONDARY STRUCTURE; THEORY. // ID CHP7801 RA Chou P.Y., Fasman G.D.; RT "Prediction of the secondary structure of proteins from their amino RT acid sequence."; RL Adv. Enzymol. 47:45-148(1978). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID CHP7901 RA Chou P.Y., Fasman G.D.; RT "Prediction of beta-turns."; RL Biophys. J. 26:367-384(1979). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID CHP7902 RA Chou P.Y., Fasman G.D.; RT "Conservation of chain reversal regions in proteins."; RL Biophys. J. 26:385-400(1979). KW PROTEIN; SECONDARY STRUCTURE. // ID CHG8901 RA Churchill G.A.; RT "Stochastic models for heterogeneous DNA sequences."; RL Bull. Math. Biol. 51:79-94(1989). KW NUCLEIC ACID; STATISTICS. // ID CHV7501 RA Chvatal V., Sankoff D.; RT "Longest common subsequences of two random sequences."; RL J. Applied Prob. 12:306-315(1975). KW RANDOM SEQUENCE. // ID CHV8301 RA Chvatal V., Sankoff D.; RT "An upper-bound techniques for lengths of common subsequences."; RL (In) Time warps, string edits, and macromolecules: the theory and RL practice of sequence comparison, Sankoff D., Kruskal J.B., Eds., RL pp353-357, Addison-Wesley, Reading, (1983). KW RANDOM SEQUENCE. // ID CIH8201 RA Cid H., Bunster M., Arriagada E., Campos M.; RT "Prediction of secondary structure of proteins by means of RT hydrophobicity profiles."; RL FEBS Letters 150:247-254(1982). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION; HYDROPHOBICITY. // ID CLJ8401 RA Claverie J.-M.; RT "A common philosophy and Fortran 77 software package for implementing RT and searching sequence databases."; RL Nucleic Acids Res. 12:397-407(1984). KW SOFTWARE PACKAGE; FORTRAN. // ID CLJ8701 RA Claverie J.-M.; RT "The application of sequence data banks."; RL (In) Biotechnology Information '86, Wakeford R., Ed., pp49-58, RL IRL Press, Oxford, (1987). KW PROTEIN; NUCLEIC ACID; DATA BANK. // ID CLJ8601 RA Claverie J.-M., Bougueleret L.; RT "Heuristic informational analysis of sequences."; RL Nucleic Acids Res. 14:179-196(1986). // ID CLJ8602 RA Claverie J.-M., Bougueleret L.; RT "Neg-entropy and local information content: a new approach to the RT analysis of nucleotide and amino acid sequences."; RL Protein, Nucleic Acid and Enzyme 29:111-122(1986). CC In Japanese. // ID CLJ8603 RA Claverie J.-M., Bricault L.; RT "PseqIP: a nonredundant and exhaustive protein sequence data bank RT generated from 4 major existing collections."; RL Proteins: Structure, Function and Genetics 1:60-65(1986). KW PROTEIN; DATA BANK. // ID CLJ8402 RA Claverie J.-M., Caudron B., Gerard O.; RT "Le systme d'analyse de squences de l'Institut Pasteur (SASIP)."; RL Biofutur 25:35-37(1984). KW NUCLEIC ACID; PROTEIN; SOFTWARE PACKAGE. CC In French. // ID CLJ8501 RA Claverie J.-M., Caudron B., Sauvaget I.; RT "SASIP: the sequence acquisition and analysis system of the Institut RT Pasteur."; RL (In) The role of data in scientific progress, Glaeser P.S., Ed., RL pp135-137, Elsevier, North Holland, (1985). KW NUCLEIC ACID; PROTEIN; SOFTWARE PACKAGE. // ID CLJ8502 RA Claverie J.-M., Sauvaget I.; RT "PGtrans: a protein sequence databank generated by computer RT translation of GenBank nucleotide sequences."; RL Trends in Biochem. Sci. 10:VIII-VIII(1985). KW PROTEIN; DATA BANK. // ID CLJ8503 RA Claverie J.-M., Sauvaget I.; RT "Assessing the biological significance of primary consensus patterns RT using sequence databanks."; RL CABIOS 1:95-104(1985). KW PATTERN. // ID CLJ8504 RA Claverie J.-M., Sauvaget I., Bougueleret L.; RT "Computer generation and statistical analysis of a data bank of RT protein sequences translated from GenBank."; RL Biochimie 67:437-443(1985). KW PROTEIN; DATA BANK. // ID CLJ8201 RA Clayton J., Kedes L.H.; RT "GEL, a DNA sequencing project management system."; RL Nucleic Acids Res. 10:305-321(1982). KW NUCLEIC ACID; SEQUENCE ASSEMBLY. // ID CLB8601 RA Clift B., Haussler D., McConnell R., Schneider T.D., Stormo G.D.; RT "Sequence landscapes."; RL Nucleic Acids Res. 14:141-158(1986). // ID COD8701 RA CODATA task group on the coordination of protein sequence data banks.; RT "Directory of protein and nucleic acid sequence data sources."; RL CODATA Bulletin 65:1-59(1987). KW PROTEIN; NUCLEIC ACID; DATA BANK. // ID COB8501 RA Coghlan B., Fraga S.; RT "Determination of proteinic structures: an experimentation program."; RL Computer Physics Communications 36:391-399(1985). KW PROTEIN; 3D STRUCTURE; PREDICTION. // ID COF8301 RA Cohen F.E., Abarbanel R.M., Kuntz I.D., Fletterick R.J.; RT "Secondary structure assignment for alpha/beta proteins by a RT combinatorial approach."; RL Biochemistry 22:4894-4904(1983). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION; ALGORITHM. // ID COF8601 RA Cohen F.E., Abarbanel R.M., Kuntz I.D., Fletterick R.J.; RT "Turn prediction in proteins using a complex pattern matching RT approach."; RL Biochemistry 25:266-275(1986). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION; PATTERN; ALGORITHM. // ID COF8602 RA Cohen F.E., Kosen P.A., Kuntz I.D., Epstein L.B., Ciardelli T.L., RA Smith K.A.; RT "Structure-activity studies of interleukin-2."; RL Science 234:349-352(1986). KW PROTEIN; 3D STRUCTURE; PREDICTION. // ID COF8701 RA Cohen F.E., Kuntz I.D.; RT "Prediction of the three dimensional structure of human growth RT hormone."; RL Proteins: Structure, Function and Genetics 2:xxx-xxx(1987). KW PROTEIN; 3D STRUCTURE; PREDICTION. // ID COF8001 RA Cohen F.E., Sternberg M.J.E., Taylor W.R.; RT "Analysis and prediction of protein beta-sheet structures by a RT combinatorial approach."; RL Nature 285:378-382(1980). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID COF8201 RA Cohen F.E., Sternberg M.J.E., Taylor W.R.; RT "Analysis and prediction of the packing of alpha-helices against a RT beta-sheet in the tertiary structure of globular proteins."; RL J. Mol. Biol. 156:821-862(1982). KW PROTEIN; 3D STRUCTURE; PREDICTION. // ID COJ8401 RA Collins J.F., Coulson A.F.W.; RT "Applications of parallel processing algorithms for DNA sequence RT analysis."; RL Nucleic Acids Res. 12:181-192(1984). KW NUCLEIC ACID; PARALLEL PROCESSING. // ID COJ8701 RA Collins J.F., Coulson A.F.W.; RT "Molecular sequence comparison and alignment."; RL (In) Nucleic acid and protein sequence analysis a practical approach., RL Bishop M.J., Rawlings C.J., Eds., pp359-385, IRL Press, Oxford, (1987). KW ALIGNMENT; REVIEW. // ID COJ8801 RA Collins J.F., Coulson A.F.W., Lyall A.; RT "The significance of protein sequence similarities."; RL CABIOS 4:67-71(1988). KW PROTEIN; ALIGNMENT; STATISTIC. // ID COE8401 RA Comay E., Nussinov R., Comay O.; RT "An accelerated algorithm for calculating the secondary structure of RT single stranded RNAs."; RL Nucleic Acids Res. 12:53-66(1984). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID COC8701 RA Connell C., Fung S., Heiner C., Bridgham J., Chakerian V., Heron E., RA Jones B., et al.; RT "Automated DNA sequence analysis."; RL Biotechniques 5:342-348(1987). KW NUCLEIC ACID. // ID COM8301 RA Connoly M.L.; RT "Solvent-accessible surfaces of protein and nucleic acids."; RL Science 221:709-713(1983). KW PROTEIN; 3D STRUCTURE; REPRESENTATION. // ID COM8302 RA Connoly M.L.; RT "Analytical molecular surface calculations."; RL J. Appl. Cryst. 16:548-558(1983). KW PROTEIN; 3D STRUCTURE; REPRESENTATION. // ID COM8601 RA Connoly M.L.; RT "Measurements of protein surface shape by solid angles."; RL J. Mol. Graphics 4:3-6(1986). KW PROTEIN; 3D STRUCTURE; REPRESENTATION. // ID COM8602 RA Connoly M.L.; RT "Plotting protein surfaces."; RL J. Mol. Graphics 4:93-96(1986). KW PROTEIN; 3D STRUCTURE; REPRESENTATION. // ID COB8201 RA Conrad B., Mount D.W.; RT "Microcomputer programs for DNA sequence analysis."; RL Nucleic Acids Res. 10:31-38(1982). KW NUCLEIC ACID; SOFTWARE PACKAGE. // ID COR8701 RA Corbett R.J.T., Roche R.S.; RT "The identification of large peptide fragments produced from proteins RT of known sequences: a computerized approach using amino acid RT composition indexes and its application to thermolysin."; RL Analytical Biochem. 162:546-552(1987). KW PROTEIN. // ID COL8701 RA Cornette J.L., Cease K.B., Margalit H., Spouge J.L., Berzofsky J.A., RA DeLisi C.; RT "Hydrophobicity scales and computational techniques for detecting RT amphiphatic structures in proteins."; RL J. Mol. Biol. 195:659-685(1987). KW PROTEIN; HYDROPHOBICITY. // ID COA8001 RA Cornish-Bowden A.; RT "The random character of protein evolution and its effect on the RT reliability of phylogenetic information deduced from amino acid RT sequences and compositions."; RL Biochem. J. 191:349-354(1980). KW PHYLOGENY. // ID COA8301 RA Cornish-Bowden A.; RT "Relating proteins by amino acid composition."; RL Methods in Enzymology 91:60-73(1983). KW PROTEIN. // ID COA8501 RA Cornish-Bowden A.; RT "Nomenclature for incompletely specified bases in nucleic acid RT sequences: recommendations 1984."; RL Nucleic Acids Res. 13:3021-3030(1985). KW NUCLEIC ACID; NOMENCLATURE. // ID COF8801 RA Corpet F.; RT "Multiple sequence alignment with hierarchical clustering." RL Nucleic Acids Res. 16:10881-10890(1988). KW MULTIPLE ALIGMENT. // ID COA8201 RA Corrigan A.J., Huang P.C.; RT "A BASIC microcomputer program for plotting the secondary structure of RT proteins."; RL Computer Programs in Biomedicine 15:163-168(1982). KW PROTEIN; SECONDARY STRUCTURE; BASIC. // ID COW8701 RA Coulson A.F.W., Collins J.F., Lyall A.; RT "Protein and nucleic acid sequence database searching: a suitable case for RT parallel processing."; RL Comput. J. 30:420-424(1987). KW PROTEIN; NUCLEIC ACID; PARALLEL PROCESSING. // ID COJ8601 RA Cowin J.E., Jellis C.H., Rickwood D.; RT "A new method of representing DNA sequences which combines ease of RT visual analysis with machine readability."; RL Nucleic Acids Res. 14:509-515(1986). KW NUCLEIC ACID; SEQUENCE REPRESENTATION. // ID CSJ8801 RA Csirik J., Magyar J.; RT "A computer algorithm to determine the recognition site of restriction RT enzymes."; RL (In) Abstracts of: Application of data bases and microcomputers in RL molecular biology, pp.36-36, Jena (1988). KW NUCLEIC ACID; RESTRICTION SITE. // ID CSJ8701 RA Csirik J., Magyar J., Polner G.; RT "A computer algorithm to determine the recognition site of restriction RT enzymes."; RL CABIOS 3:245-246(1987). KW NUCLEIC ACID; RESTRICTION SITE. // ID CUV8401 RA Cuomo V., Macchiato M.F., Tramontano A.; RT "A statistical method for predicting alpha-helical and beta-sheet RT regions in proteins from their amino acidic sequences."; RL Il Nuevo Cimento 3D:421-434(1984). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION; STATISTIC. // ID DAJ8601 RA Dabrowiak J.C., Skorobogaty A., Rich N., Vary C.P.H., Vournakis J.N.; RT "Computer assisted microdensitometric analysis of footprinting RT autoradiographic data."; RL Nucleic Acids Res. 14:489-499(1986). // ID DAA8701 RA Danckaert A., Mugnier C., Dessen P., Cohen-Solal M.; RT "A computer program for the design of optimal synthetic RT oligonucleotides probes for protein coding genes."; RL CABIOS 3:303-307(1987). KW NUCLEIC ACID; PROTEIN; PROBE SELECTION; FORTRAN. // ID DAF8501 RA Dardel F.; RT "PEGASE: a machine language program for DNA sequence analysis on Apple RT II microcomputer using a binary coding of nucleotides."; RL CABIOS 1:19-22(1985). KW NUCLEIC ACID; APPLE II. // ID DAF8502 RA Dardel F.; RT "A microcomputer program for comparison and alignment of DNA sequence RT gel readings."; RL CABIOS 1:173-175(1985). KW NUCLEIC ACID; SEQUENCE ASSEMBLY. // ID DAF8801 RA Dardel F.; RT "Computer simulation of DNA ligation: determination of initial DNA RT concentrations favouring the formation of recombinant molecules."; RL Nucleic Acids Res. 16:1767-1778(1988). KW NUCLEIC ACID. // ID DAF8802 RA Dardel F., Bensoussan P.; RT "DNAid: a Macintosh full screen editor featuring a built-in regular RT expression interpreter for the search of specific patterns in biological RT sequences using finite state automata."; RL CABIOS 4:483-486(1988). KW NUCLEIC ACID; PROTEIN; DATA ENTRY; PATTERN; APPLE MACINTOSH. // ID DAD6401 RA Davies D.R.; RT "A correlation between amino acid composition and protein structure."; RL J. Mol. Biol. 9:605-609(1964). KW PROTEIN. // ID DAD8501 RA Davison D.; RT "Sequence similarity ('homology') searching for molecular biologists."; RL Bull. Math. Biol. 47:437-474(1985). KW ALIGNMENT; SIMILARITY SEARCH; REVIEW. // ID DAD8401 RA Davison D., Thompson K.; RT "A non-metric sequence alignment program."; RL Bull. Math. Biol. 46:579-590(1984). KW ALIGNMENT. // ID DAG8201 RA Day G.R., Blake R.D.; RT "Statistical significance of symmetrical and repetitive segments in RT DNA."; RL Nucleic Acids Res. 10:8323-8339(1982). KW NUCLEIC ACID; STATISTIC; REPEATS. // ID DAG8401 RA Day G.R., Blake R.D.; RT "Computer analysis and manipulation of DNA sequences."; RL Computers and Chemistry 8:67-73(1984). KW NUCLEIC ACID. // ID DAW8401 RA Day W.H.E.; RT "Properties of Levenshtein metrics on sequences."; RL Bull. Math. Biol. 46:327-332(1984). // ID DAJ8401 RA Dayhoff J.; RT "Distinguished words in data sequences: analysis and applications to RT neural coding and other fields."; RL Bull. Math. Biol. 46:529-543(1984). // ID DAM7401 RA Dayhoff M.O.; RT "Computer analysis of protein sequences."; RL Fed. Proc. 33:2314-2316(1974). KW PROTEIN. // ID DAM7801 RA Dayhoff M.O.; RT "Survey of new data and computer methods of analysis."; RL (In) Atlas of Protein Sequence and Structure, 5 suppl. 3:1-8(1978), RL Nat. Biomed. Res. Found., Washington D.C. KW PROTEIN; REVIEW. // ID DAM8301 RA Dayhoff M.O., Barker W.C., Hunt L.T.; RT "Establishing homologies in protein sequences."; RL Methods in Enzymology 91:524-544(1983). KW PROTEIN. // ID DAM6401 RA Dayhoff M.O., Eck R.V.; RT "Computer aids to protein sequence determination."; RL J. Theor. Biol. 8:97-112(1964). KW PROTEIN. // ID DAM7201 RA Dayhoff M.O., Eck R.V., Park C.M.; RT "A model of evolutionary change in proteins."; RL (In) Atlas of Protein Sequence and Structure, 5:89-99(1972), Nat. RL Biomed. Res. Found., Washington D.C. KW PHYLOGENY. // ID DAM7901 RA Dayhoff M.O., Orcutt B.C.; RT "Methods for identifying proteins by using partial sequences."; RL Proc. Natl. Acad. Sci. USA 76:2170-2174(1979). KW PROTEIN. // ID DAM7202 RA Dayhoff M.O., Park C.M., McLaughlin P.J.; RT "Building a phylogenetic tree: cytochrome c."; RL (In) Atlas of Protein Sequence and Structure, 5:7-16(1972), Nat. RL Biomed. Res. Found., Washington D.C. KW PHYLOGENY. // ID DAM7802 RA Dayhoff M.O., Schwartz R.M., Orcutt B.C.; RT "A model of evolutionary change in proteins."; RL (In) Atlas of Protein Sequence and Structure, 5 suppl. 3:345-352 RL (1978), Nat. Biomed. Res. Found., Washington D.C. KW PHYLOGENY. // ID DAM8101 RA Dayhoff M.O., Schwartz R.M., Chen H.R., Barker W.C., Hunt L.T., RA Orcutt B.C.; RT "Nucleic acid sequence database."; RL DNA 1:51-58(1981). KW NUCLEIC ACID; DATA BANK. // ID DAH8601 RA Dayringer H., Tramontano A., Fletterick R.J.; RT "PROTEUS: graphics software for proteins."; RL (In) Computer graphics and molecular modeling, Fletterick R., RL Zoller M., Eds., pp5-8, Cold Spring Harbor Laboratory, New-York, (1986). KW PROTEIN; 3D STRUCTURE; REPRESENTATION. // ID DES8401 RA DeBanzie J.S., Steeg E.W., Lis J.T.; RT "Update for users of the Cornell sequence analysis package."; RL Nucleic Acids Res. 12:619-625(1984). KW SOFTWARE PACKAGE. // ID DEP8701 RA Deininger P., Smith W.; RT "Voice input of DNA sequence data."; RL Biotechniques 5:6-7(1987). KW NUCLEIC ACID; VOICE ENTRY. // ID DEA8201 RA Delaney A.D.; RT "A DNA sequence handling program."; RL Nucleic Acids Res. 10:61-67(1982). KW NUCLEIC ACID. // ID DEM6201 RA Delbruck M.; RT "Knotting problems in biology."; RL Proc. Symp. Appl. Math. 14:55-63(1962). // ID DEA7501 RA Delcoigne A., Hansen P.; RT "Sequence comparison by dynamic programming."; RL Biometrika 62:661-664(1975). // ID DEG8801 RA Deleage G., Clerc F.C., Roux B., Gautheron D.C.; RT "ANTHEPROT: a package for protein sequence analysis using a RT microcomputer."; RL CABIOS 4:351-356(1988). KW PROTEIN; SOFTWARE PACKAGE; APPLE II. // ID DEG8901 RA Deleage G., Clerc F.F., Roux B.; RT "ANTHEPROT: IBM PC and Apple Macintosh versions."; RL CABIOS 5:159-160(1989). KW PROTEIN; SOFTWARE PACKAGE; APPLE MCINTOSH; IBM PC. // ID DEG8701 RA Deleage G., Roux B.; RT "An algorithm for protein secondary structure prediction based on RT class prediction."; RL Protein Engineering 1:289-294(1987). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID DEG8702 RA Deleage G., Tinland B., Roux B.; RT "A computerized version of the Chou and Fasman method for predicting RT the secondary structure of proteins."; RL Analytical Biochem. 165:200-207(1987). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID DEC8801 RA DeLisi C.; RT "Computers in molecular biology: current applications and emerging RT trends."; RL Science 240:47-52(1988). KW NUCLEIC ACID; PROTEIN; REVIEW. // ID DEM8801 RA Delorme M.-O., Henaut A.; RT "Merging of distance matrices and classification by dynamic clustering."; RL CABIOS 4:453-458(1988). KW PHYLOGENY. // ID DEJ8401 RA Devereux J., Haeberli P., Smithies O.; RT "A comprehensive set of sequence analysis programs for the VAX."; RL Nucleic Acids Res. 12:387-395(1984). KW SOFTWARE PACKAGE; VAX. // ID DIR8301 RA Dickerson R.E.; RT "Base sequence and helix structure variation in B and A DNA."; RL J. Mol. Biol. 166:419-441(1983). KW NUCLEIC ACID; DNA; SECONDARY STRUCTURE; PREDICTION. // ID DIR8201 RA Dickerson R.E., Drew H.R., Conner B.N., Kopka M.L., Pjura P.E.; RT "Helix geometry and hydration in A-DNA, B-DNA, and Z-DNA."; RL Cold Spring Harbor Symp. Quant. Biol. 47:13-24(1982). KW NUCLEIC ACID; DNA; SECONDARY STRUCTURE; THEORY. // ID DIR8202 RA Dickerson R.E., Drew H.R., Connor B.N., Wing R.M., Fratini A.V., RA Kopka M.L.; RT "The anatomy of A-, B- and Z-DNA."; RL Science 216:475-485(1982). KW NUCLEIC ACID; DNA; SECONDARY STRUCTURE; THEORY. // ID DIR8302 RA Dickerson R.E., Kopka M.L., Pjura P.E.; RT "A random-walk model for helix bending in B-DNA."; RL Proc. Natl. Acad. Sci. USA 80:7099-7103(1983). KW NUCLEIC ACID; DNA; SECONDARY STRUCTURE; THEORY. // ID DIS8701 RA Dickman S.; RT "New protein database for Europe."; RL Nature 327:265-265(1987). KW PROTEIN; DATA BANK. // ID DIA8601 RA Diehl A., Rea D.W., Hass L.F.; RT "MATCH-UP/MATRIX: a microcomputer program designed to search for RT protein primary structure homology."; RL CABIOS 2:95-98(1986). KW PROTEIN; DOT MATRIX. // ID DIT8801 RA Dix T.I., Kieronska D.H.; RT "Errors between sites in restriction site mapping."; RL CABIOS 4:117-124(1988). KW NUCLEIC ACID; RESTRICTION MAP. // ID DOI8701 RA Dodd I.B., Egan J.B.; RT "Systematic method for the detection of potential lambda cro-like DNA- RT binding regions in proteins."; RL J. Mol. Biol. 194:557-564(1987). KW PROTEIN; DNA-BINDING. // ID DOP8601 RA Doggett P.E., Blattner F.R.; RT "Personal access to sequence databases on personal computers."; RL Nucleic Acids Res. 14:611-619(1986). KW DATA BANK. // ID DOR7901 RA Doolitle R.F.; RT "Protein evolution."; RL (In) The Proteins, Neurath H., Hills R.L., Eds., 2nd Ed., 4:1-118, RL Academic Press, New-York, (1979). KW PROTEIN; REVIEW. // ID DOR8101 RA Doolitle R.F.; RT "Similar amino acid sequences: chance or common ancestry."; RL Science 214:149-159(1981). KW PROTEIN; COMPARISON MATRIX. // ID DOR8601 RA Doolitle R.F.; RT "Of URFs and ORFs: a primer on how to analyze derived amino acid RT sequences."; RL (In) University Science Books, Mill Valley California, (1986). KW PROTEIN; REVIEW. // ID DOR8401 RA Doolitle R.F., Feng D.F., Johnson M.S.; RT "Computer-based characterization of epidermal growth factor RT precursor."; RL Nature 307:558-560(1984). KW PROTEIN. // ID DOJ8801 RA Dopazo J.; RT "Reducing the effect of the data order in algorithms for constructing RT phylogenetic trees."; RL CABIOS 4:307-307(1988). KW PHYLOGENY. // ID DOR8801 RA Douthart R.J., Schmaltz J.E., Thomas J.J.; RT "Color graphic representations of large sequences in the GEM RT environment."; RL Nucleic Acids Res. 16:1657-1666(1988). KW NUCLEIC ACID; SOFTWARE PACKAGE; VAX. // ID DOJ8601 RA Douthart R.J., Thomas J.J., Rosier S.D., Schmaltz J.E., West J.W.; RT "Cloning simulation in the CAGE environment."; RL Nucleic Acids Res. 14:285-297(1986). KW NUCLEIC ACID; SOFTWARE PACKAGE; VAX. // ID DUM8801 RA Dubnick M., Lewis L.K., Mount D.W.; RT "BIGPROBE: a computer program that predicts the sequence of long RT oligonucleotide probes with high reliability."; RL Nucleic Acids Res. 16:1703-1714(1988). KW NUCLEIC ACID; PROTEIN; PROBE SELECTION; C LANGUAGE; IBM-PC. // ID DUR8101 RA Duggleby R.G., Kinns H., Rood J.I.; RT "A computer program for determining the size of DNA restriction RT fragments."; RL Analytical Biochem. 110:49-55(1981). KW NUCLEIC ACID; RESTRICTION MAP. // ID DUJ8201 RA Dumas J.-P., Ninio J.; RT "Efficient algorithms for folding and comparing nucleic acid RT sequences."; RL Nucleic Acids Res. 10:197-206(1982). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID DUP6801 RA Dunnill P.; RT "The use of helical net-diagrams to represent protein structures."; RL Biophys. J. 8:865-875(1968). KW PROTEIN; SECONDARY STRUCTURE; REPRESENTATION. // ID DUR8401 RA Durand R., Bregegere F.; RT "An efficient program to construct restriction maps from experimental RT data with realistic error levels."; RL Nucleic Acids Res. 12:703-716(1984). KW NUCLEIC ACID; RESTRICTION MAP. // ID EDM8701 RA Edwards M.S., Sternberg M.J.E., Thornton J.M.; RT "Structural and sequence patterns in loops of beta-alpha-beta units."; RL Protein Engineering 1:173-181(1987). KW PROTEIN; PATTERN. // ID EGY8601 RA Eguchi Y.; RT "Amino acid sequence analysis by a microcomputer."; RL Protein, Nucleic Acid and Enzyme 29:210-218(1986). KW PROTEIN; SOFTWARE PACKAGE. CC In Japanese. // ID EID8401 RA Eisenberg D.; RT "Three-dimensional structure of membrane and surface proteins."; RL Ann. Rev. Biochem. 53:595-623(1984). KW PROTEIN; REVIEW. // ID EID8601 RA Eisenberg D., McLachlan A.D.; RT "Solvation energy in protein folding and binding."; RL Nature 319:199-203(1986). KW PROTEIN. // ID EID8402 RA Eisenberg D., Schwarz E., Komaromy M., Wall R.; RT "Analysis of membrane and surface protein sequences with the RT hydrophobic moment plot."; RL J. Mol. Biol. 179:125-142(1984). KW PROTEIN; HYDROPHOBICITY; TRANSMEMBRANE REGION. // ID EID8201 RA Eisenberg D., Weiss R.M., Terwilliger T.C.; RT "The helical hydrophobic moment: a measure of the amphilicity of a RT helix."; RL Nature 299:371-374(1982). KW PROTEIN; HYDROPHOBICITY. // ID EID8403 RA Eisenberg D., Weiss R.M., Terwilliger T.C.; RT "The hydrophobic moment detects periodicity in protein RT hydrophobicity."; RL Proc. Natl. Acad. Sci. USA 81:140-144(1984). KW PROTEIN; HYDROPHOBICITY. // ID EID8202 RA Eisenberg D., Weiss R.M., Terwilliger T.C., Wilcox W.; RT "Hydrophobic moments and protein structure."; RL Faraday Symposia Chemical Society 17:109-120(1982). KW PROTEIN; HYDROPHOBICITY. // ID EID8602 RA Eisenberg D., Wilcox W., Eshita S.; RT "Free energy and protein folding: hydrophobic moments and solvation RT free energy."; RL (In) Computer graphics and molecular modeling, Fletterick R., RL Zoller M., Eds., pp59-65, Cold Spring Harbor Laboratory, New-York, (1986). KW PROTEIN; HYDROPHOBICITY. // ID EID8701 RA Eisenberg D., Wilcox W., Eshita S.; RT "Hydrophobic moments as tools for analysis of protein sequences."; RL (In) Proteins: structure and function, L'Italien J.J., Ed., pp425-436, RL Plenum, New-York, (1987). KW PROTEIN; HYDROPHOBICITY. // ID ELJ8601 RA Elder J.K., Green D.K., Southern E.M.; RT "Automatic reading of DNA sequencing gel autoradiographs using a large RT format digital scanner."; RL Nucleic Acids Res. 14:417-424(1986). KW NUCLEIC ACID; GEL SCANNING. // ID ELJ8701 RA Elder J.K., Southern E.M.; RT "Computer-aided analysis of one-dimensional restriction fragment RT gels."; RL (In) Nucleic acid and protein sequence analysis a practical approach, RL Bishop M.J., Rawlings C.J., Eds., pp359-385, IRL Press, Oxford, (1987). KW NUCLEIC ACID; RESTRICTION FRAGMENT; REVIEW. // ID ELJ8702 RA Elder J.K., Southern E.M.; RT "Automatic reading of DNA sequencing gels autoradiographs."; RL (In) Nucleic acid and protein sequence analysis a practical approach, RL Bishop M.J., Rawlings C.J., Eds., pp359-385, IRL Press, Oxford, (1987). KW NUCLEIC ACID; GEL SCANNING; REVIEW. // ID ELT7801 RA Elleman T.C.; RT "A method for detecting distant evolutionary relationships between RT protein or nucleic acid sequences in the presence of deletions or RT insertions."; RL J. Mol. Evol. 11:143-161(1978). KW PHYLOGENY. // ID EMB8701 RA EMBL Data Library and GenBank(R) staff; RT "A new system for direct submission of data to the nucleotide sequence RT data banks."; RL Nucleic Acids Res. 15:Number 18(1987). KW NUCLEIC ACID; DATA BANK. // ID EME8501 RA Emini E.A., Hughes J.V., Perlow D.S., Boger J.; RT "Induction of Hepatitis A virus-neutralizing antibody by a virus- RT specific synthetic peptide."; RL J. Virol. 55:836-839(1985). KW PROTEIN; ANTIGENIC DETERMINANT; PREDICTION. // ID ENL8501 RA Engel L.W.; RT "Database management for a recombinant DNA bank."; RL Biotechnology 3:329-335(1985). KW NUCLEIC ACID. // ID END8601 RA Engelman D.M., Steitz T.A., Goldman A.; RT "Identifying nonpolar transbilayer helices in amino acid sequences of RT membrane proteins."; RL Ann. Rev. Biophys. Biophys. Chem. 15:321-353(1986). KW PROTEIN; TRANSMEMBRANE REGION; REVIEW. // ID END8101 RA Engelman D.M., Steitz T.A.; RT "The spontaneous insertion of proteins into and across membranes: the RT helical hairpin hypothesis."; RL Cell 23:411-422(1981). KW PROTEIN. // ID ERV8701 RA Erdmann V.A., Wolters J., Digweed M., Pieler T., Lindschau C., RA Lorenz S., Ulbrich N.; RT "Computer analysis of ribosomal 5S RNA sequences and their correlation RT with biochemical structural data."; RL (In) Computer handling and dissemination of data, Glaeser P.S., Ed., RL pp373-380, Elsevier, North Holland, (1987). KW NUCLEIC ACID; RRNA. // ID ERV8702 RA Erdmann V.A., Wolters J.; RT "The Berlin RNA databank."; RL Protein Seq. Data Anal. 1:127-127(1987). KW NUCLEIC ACID; RRNA; DATA BANK. // ID ERB8501 RA Erickson B.W., Altschul S.F.; RT "Significance of DNA or RNA alignments: random permutation methods RT that preserve dinucleotide, trinucleotide or dinucleotide and codon RT usage."; RL Fed. Proc. 44:1086-1086(1985). KW NUCLEIC ACID; RANDOM SEQUENCE. // ID ERB8301 RA Erickson B.W., Sellers P.H.; RT "Recognition of patterns in genetic sequences."; RL (In) Time warps, string edits, and macromolecules: the theory and RL practice of sequence comparison, Sankoff D., Kruskal J.B., Eds., RL pp55-91, Addison-Wesley, Reading, (1983). KW PATTERN. // ID EZA8801 RA Ezhov A.A., Kalambet Y.A., Cherny D.Y.; RT "Neuron net for the recognition of E.coli promoters."; RL (In) Abstracts of: Application of data bases and microcomputers in RL molecular biology, pp.30-30, Jena (1988). KW NUCLEIC ACID; PROMOTERS; ARTIFICAL INTELLIGENCE. // ID FAF8801 RA Facchiano F., Facchiano A., Facchiano A., Ragone R., Colonna G.; RT "New graphic representation of structural parameters of proteins."; RL CABIOS 4:303-305(1988). KW PROTEIN; REPRESENTATION. // ID FAJ7301 RA Farris J.J.; RT "Estimation of the number of amino acid substitutions when back RT mutations can occur."; RL Am. Naturalist 107:531-534(1973). KW PHYLOGENY; EVOLUTIONARY DISTANCE. // ID FAG8501 RA Fasman G.D.; RT "Prediction of protein structure from sequence."; RL Nature 316:22-22(1985). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID FAJ8301 RA Fauchere J.L., Pliska V.E.; RT "Hydrophobic parameters pi of amino acid side chains from the RT partitioning of N-acetyl-amino acid amides."; RL Eur. J. Med. Chem. 18:369-375(1983). KW PROTEIN; HYDROPHOBICITY; SCALE. // ID FAJ8501 RA Fauchere J.L.; RT "How hydrophobic is tryptophan ?"; RL Trends in Biochem. Sci. 10:268-268(1985). KW PROTEIN; HYDROPHOBICITY. // ID FAD8801 RA Faulkner D.V., Jurka J.; RT "Multiple aligned sequence editor (MASE)."; RL Trends in Biochem. Sci. 13:321-322(1988). KW ALIGNMENT EDITOR. // ID FER7601 RA Feldmann R.J.; RT "The design of computing systems for molecular modeling."; RL Ann. Rev. Biophys. Bioeng. 5:477-510(1976). KW PROTEIN; 3D STRUCTURE; REPRESENTATION; REVIEW. // ID FER8501 RA Feldmann R.J., Bing D.H., Potter M., Mainhart C., Furie B., RA Furie C.B., Caporale L.H.; RT "On the construction of computer models of proteins by the extension RT of crystallographic structures."; RL Ann. NY. Acad. Sci. 439:12-43(1985). KW PROTEIN; 3D STRUCTURE; REPRESENTATION. // ID FEJ8101 RA Felsenstein J.; RT "Evolutionary trees from DNA sequences: a maximum likelihood RT approach."; RL J. Mol. Evol. 17:368-376(1981). KW PHYLOGENY. // ID FEJ8202 RA Felsenstein J.; RT "Numerical methods for inferring evolutionary trees."; RL Quat. Rev. Biol. 57:379-404(1982). KW PHYLOGENY; REVIEW. // ID FEJ8501 RA Felsenstein J.; RT "Phylogenies from gene frequencies: a statistical problem."; RL Syst. Zool. 34:300-311(1985). KW PHYLOGENY. // ID FEJ8801 RA Felsenstein J.; RT "Phylogenies from molecular sequences: inference and reliability." RL Ann. Rev. Genet. 22:521-565(1988). KW PHYLOGENY; REVIEW. // ID FEJ8201 RA Felsenstein J., Sawyer S., Kochin R.; RT "An efficient method for matching nucleic acid sequences."; RL Nucleic Acids Res. 10:133-139(1982). KW NUCLEIC ACID. // ID FED8701 RA Feng D.F., Doolitle R.F.; RT "Progressive sequence alignment as a prerequisite to correct RT phylogenetic trees."; RL J. Mol. Evol. 25:351-360(1987). KW PROTEIN; MULTIPLE ALIGNMENT; PHYLOGENY. // ID FED8501 RA Feng D.F., Johnson M.S., Doolitle R.F.; RT "Aligning amino acids sequences: comparison of commonly used methods."; RL J. Mol. Evol. 21:112-125(1985). KW PROTEIN; ALIGNMENT; COMPARISON MATRIX. // ID FEV8901 RA Ferretti V., Sankoff D.; RT "Continuous analog for RNA folding."; RL Bull. Math. Biol. 51:167-171(1989). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID FIG8701 RA Fichant G., Gautier C.; RT "Statistical method for predicting protein coding regions in nucleic RT acid sequences."; RL CABIOS 3:287-295(1987). KW NUCLEIC ACID; CODING SEQUENCE IDENTIFICATION. // ID FIJ8201 RA Fickett J.W.; RT "Recognition of protein coding regions in DNA sequences."; RL Nucleic Acids Res. 10:5303-5318(1982). KW NUCLEIC ACID; CODING SEQUENCE IDENTIFICATION. // ID FIJ8401 RA Fickett J.W.; RT "Fast optimal alignment."; RL Nucleic Acids Res. 12:175-179(1984). KW ALIGNMENT. // ID FIJ8601 RA Fickett J.W.; RT "Correct transmission of protein coding regions in GenBank."; RL Trends in Biochem. Sci. 11:190-190(1986). KW NUCLEIC ACID; PROTEIN; DATA BANK. // ID FIJ8901 RA Fickett J.W., Burks C.; RT "Development of a database for nucleotide sequences."; RL (In) Mathematical methods for DNA sequences, Waterman M.S., Ed., RL pp1-34, CRC Press, Boca Raton, (1989). KW NUCLEIC ACID; DATA BANK. // ID FIP8701 RA Findlay P.R.; RT "Drawing restriction maps with the VAX computer."; RL Trends in Biotechnology 5:90-90(1987). KW NUCLEIC ACID; RESTRICTION SITE; RESTRICTION MAP; VAX. // ID FIW8501 RA Fink W.L.; RT "Microcomputers and phylogenetic analysis."; RL Science 234:1135-1139(1985). KW PHYLOGENY. // ID FIR8701 RA Fishleigh R.V., Robson B., Garnier J., Finn P.W.; RT "Studies on rationales for an expert system approach to the RT interpretation of protein sequence data."; RL FEBS Letters 214:219-225(1987). KW PROTEIN; EXPERT SYSTEM; SECONDARY STRUCTURE; PREDICTION. // ID FIW6601 RA Fitch W.M.; RT "An improved method for testing for evolutionary homology."; RL J. Mol. Biol. 16:9-16(1966). KW PHYLOGENY. // ID FIW6901 RA Fitch W.M.; RT "Locating gaps in amino acid sequences to optimize the homology RT between two proteins."; RL Biochem. Genet. 3:99-108(1969). KW PROTEIN. // ID FIW7001 RA Fitch W.M.; RT "Further improvements in the method of testing for evolutionary RT homology among proteins."; RL J. Mol. Biol. 49:1-14(1970). KW PHYLOGENY. // ID FIW7101 RA Fitch W.M.; RT "Toward defining the course of evolution: minimum change for a RT specific tree topology."; RL Syst. Zool. 20:406-416(1971). KW PHYLOGENY. // ID FIW7501 RA Fitch W.M.; RT "On the problem of discovering the most parsimonious tree."; RL Am. Naturalist 111:223-257(1975). KW PHYLOGENY. // ID FIW8101 RA Fitch W.M.; RT "A non-sequential method for constructing trees and hierarchical RT classifications."; RL J. Mol. Evol. 18:30-37(1981). KW PHYLOGENY. // ID FIW8102 RA Fitch W.M.; RT "The old REH theory remains unsatisfactory and the new REH theory is RT problematical - a reply to Holmquist and Jukes."; RL J. Mol. Evol. 18:60-67(1981). KW PHYLOGENY. // ID FIW8301 RA Fitch W.M.; RT "Calculating the expected frequencies of potential secondary structure RT in nucleic acids as a function of stem length, loop size, base RT composition and nearest-neighbor frequencies."; RL Nucleic Acids Res. 11:4655-4663(1983). KW NUCLEIC ACID; SECONDARY STRUCTURE; STATISTIC. // ID FIW8302 RA Fitch W.M.; RT "Random sequences."; RL J. Mol. Biol. 163:171-176(1983). KW RANDOM SEQUENCE. // ID FIW7601 RA Fitch W.M., Langley C.H.; RT "Protein evolution and molecular clock."; RL Fed. Proc. 35:2092-2097(1976). KW PHYLOGENY. // ID FIW6701 RA Fitch W.M., Margoliash E.; RT "Construction of phylogenetic trees."; RL Science 155:279-284(1967). KW PHYLOGENY. // ID FIW7002 RA Fitch W.M., Markowitz E.; RT "An improved method for determining codon variability in a gene and RT its application to the rate of fixation of mutations in evolution."; RL Biochem. Genet. 4:579-593(1970). KW PHYLOGENY. // ID FIW8201 RA Fitch W.M., Smith T.F.; RT "Implications of minimal length trees."; RL Syst. Zool. 31:68-75(1982). KW PHYLOGENY. // ID FIW8303 RA Fitch W.M., Smith T.F.; RT "Optimal sequence alignments."; RL Proc. Natl. Acad. Sci. USA 80:1382-1386(1983). KW ALIGNMENT. // ID FIW8304 RA Fitch W.M., Smith T.F., Ralph W.W.; RT "Mapping the order of DNA restriction fragments."; RL Gene 22:19-29(1983). KW NUCLEIC ACID; RESTRICTION MAP. // ID FOR8701 RA Folz R.J., Gordon J.I.; RT "Computer-assisted predictions of signal peptidase processing sites."; RL Biochem. Biophys. Res. Commun. 146:870-877(1987). KW PROTEIN; SIGNAL SEQUENCE; VAX; IBM PC; C LANGUAGE; PASCAL. // ID FOR8801 RA Folz R.J., Gordon J.I.; RT "PARA-SITE: a computer algorithm for rapidly analyzing the physical- RT chemical properties of amino acid sequences at sites of co- and post- RT translational protein processing."; RL CABIOS 4:175-179(1988). KW PROTEIN; VAX; C LANGUAGE. // ID FOC8601 RA Fondrat C., Desse P., Le Beux P.; RT "Principle of codification for quick comparisons with the entire RT biomolecule databanks and associated programs in FORTRAN 77."; RL Nucleic Acids Res. 14:197-204(1986). KW FORTRAN. // ID FRS8201 RA Fraga S.; RT "Theoretical prediction of protein antigenic determinants from amino RT acid sequences."; RL Can. J. Chem. 60:2606-2610(1982). KW PROTEIN; ANTIGENIC DETERMINANT; PREDICTION. // ID FRS8301 RA Fraga S.; RT "Determination of antigenic determinants."; RL Computer Physics Communications 30:325-331(1983). KW PROTEIN; ANTIGENIC DETERMINANT; PREDICTION. // ID FRS8501 RA Fraga S., Singh B., Coghlan B.; RT "Theoretical studies of protein structures: prediction of antigenic RT determinants."; RL J. Mol. Structure 120:213-226(1985). KW PROTEIN; ANTIGENIC DETERMINANT; PREDICTION. // ID FRM8401 RA Fredman M.L.; RT "Algorithms for computing evolutionary similarity measures with length RT independent gap penalties."; RL Bull. Math. Biol. 46:553-566(1984). KW ALIGNMENT. // ID FRS8601 RA Freier S.M., Kierzek R., Jaeger J.A., Sugimoto N., Caruthers M.H., RA Neilson T., Turner D.H.; RT "Improved free-energy parameters for predictions of RNA duplex RT stability."; RL Proc. Natl. Acad. Sci. USA 83:9373-9377(1986). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; BASE-BAIR ENERGY PARAMETERS. // ID FRR8501 RA Freier S.M., Sinclair A., Neilson T., Turner D.H.; RT "Improved free energies for G.C base-pairs."; RL J. Mol. Biol. 185:645-647(1985). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; BASE-PAIR ENERGY PARAMETERS. // ID FRT8801 RA Friedemann T.; RT "Alignment of multiple DNA and protein sequence data."; RL CABIOS 4:213-214(1988). KW MULTIPLE ALIGNMENT; REVIEW. // ID FRP8201 RA Friedland P., Kedes L.H., Brutlag D.L., Iwasaki Y., Bach R.; RT "GENESIS: a knowledge-based genetic engineering simulation system for RT representation of genetic data and experiment planning."; RL Nucleic Acids Res. 10:323-340(1982). KW NUCLEIC ACID; EXPERT SYSTEM. // ID FRE8801 RA Friedrichowicz E., Zinke M.; RT "PROSA - a property based protein sequence analysis implemented for RT personal computers."; RL (In) Abstracts of: Application of data bases and microcomputers in RL molecular biology, pp.46-46, Jena (1988). KW PROTEIN; SOFTWARE PACKAGE. // ID FRB8601 RA Fristensky B.; RT "Improving the efficiency of dot-matrix similarity searches through RT use of an oligomer table."; RL Nucleic Acids Res. 14:597-610(1986). KW NUCLEIC ACID; SIMILARITY SEARCH; DOT MATRIX. // ID FRB8201 RA Fristensky B., Lis J.T., Wu R.; RT "Portable microcomputer software for nucleotide sequence analysis."; RL Nucleic Acids Res. 10:6451-6463(1982). KW NUCLEIC ACID. // ID FRN8701 RA Froelich N., Williams L.C., Casagrande J.T., McMillan M.; RT "Computer analysis of protein sequencing data."; RL (In) Proteins: structure and function, L'Italien J.J., Ed., pp455-460, RL Plenum, New-York, (1987). KW PROTEIN. // ID FRC8401 RA Frommel C.; RT "The apolar surface area of amino acids and its empirical correlation with RT hydrophobic free energy."; RL J. Theor. Biol. 111:247-260(1984). KW PROTEIN; HYDROPHOBICITY; SCALE. // ID FRC8501 RA Frommel C., Holzhutter H.-G.; RT "An estimate of the effect of point mutation and natural selection on RT the rate of amino acid replacement in proteins."; RL J. Mol. Evol. 21:233-257(1985). KW PHYLOGENY. // ID GAC8701 RA Gaboriaud C., Bissery V., Benchetrit T., Mornon J.P.; RT "Hydrophobic cluster analysis: an efficient new way to compare and RT analyse amino acid sequences."; RL FEBS Letters 224:149-155(1987). KW PROTEIN; HYDROPHOBICITY; SECONDARY STRUCTURE; SEQUENCE REPRESENTATION. // ID GAD8501 RA Galas D.J., Eggert M., Waterman M.S.; RT "Rigorous pattern-recognition methods for DNA sequences. Analysis of RT promoter sequences from Escherichia coli."; RL J. Mol. Biol. 186:117-128(1985). KW NUCLEIC ACID; PROMOTERS; PATTERN. // ID GAP8001 RA Garden P.W.; RT "Markov analysis of viral DNA/RNA sequences."; RL J. Theor. Biol. 82:679-6xx(1980). KW NUCLEIC ACID. // ID GAJ7901 RA Garell J.I.; RT "Two-dimensional gel electrophoresis and computer analysis of proteins RT synthesized by clonal cell lines."; RL J. Biol. Chem. 254:7961-7977(1979). KW PROTEIN. // ID GAC8601 RA Gariepy C.E., Lomax M.I., Grossman L.I.; RT "SPLINT: a cubic spline interpolation program for the analysis of RT fragment sizes in one-dimensional electrophoresis gels."; RL Nucleic Acids Res. 14:575-581(1986). // ID GAJ7801 RA Garnier J., Osguthorpe D.J., Robson B.; RT "Analysis of the accuracy and implications of simple methods for RT predicting the secondary structure of globular proteins."; RL J. Mol. Biol. 120:97-120(1978). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID GAR8501 RA Garratt R.C., Taylor W.R., Thornton J.M.; RT "The influence of tertiary structure on secondary structure prediction: RT accessibility versus predictability for beta-structure."; RL FEBS Letters 188:59-62(1985). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION; TERTIARY STRUCTURE. // ID GAO8501 RA Gascuel O.; RT "Structural descriptions. Discrimination and learning of these RT descriptions."; RL Biochimie 67:499-507(1985). // ID GAO8501 RA Gascuel O.; RT "Descriptions structurelles. Discrimination et aprentissage sur ces RT descriptions."; RL Biochimie 67:499-507(1985). KW ARTIFICIAL INTELLIGENCE; TRNA. CC In french. // ID GAO8801 RA Gascuel O., Golmard J.L.; RT "A simple method for predicting the secondary structure of globular RT proteins: implications and accuracy."; RL CABIOS 4:357-365(1988). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID GAM8501 RA Gates M.A.; RT "Simpler DNA sequence representations."; RL Nature 316:219-219(1985). KW NUCLEIC ACID; SEQUENCE REPRESENTATION. // ID GAC8501 RA Gautier C., Gouy M., Louail S.; RT "Non-parametric statistics for nucleic acid sequence study."; RL Biochimie 67:449-453(1985). KW NUCLEIC ACID; STATISTIC. // ID GED8601 RA George D.G., Barker W.C., Hunt L.T.; RT "The protein identification resource (PIR)."; RL Nucleic Acids Res. 14:11-15(1986). KW PROTEIN; DATA BANK. // ID GED8701 RA George D.G., Barker W.C., Hunt L.T.; RT "The Protein Identification Resource (PIR): an on-line computer system for RT the characterization of proteins based on comparisons with previously RT characterized protein sequences."; RL (In) Proteins: structure and function, L'Italien J.J., Ed., pp445-453, RL Plenum, New-York, (1987). KW PROTEIN; DATA BANK. // ID GED8702 RA George D.G., Hunt L.T., Barker W.C.; RT "Nucleic acid data base management."; RL Science 235:1562-1562(1987). KW NUCLEIC ACID; DATA BANK. // ID GED8703 RA George D.G., Mewes H.W., Kihara H.; RT "A standardized format for sequence data exchange."; RL Protein Seq. Data Anal. 1:27-39(1987). KW PROTEIN; NUCLEIC ACID; DATA BANK. // ID GEP8801 RA Gershon P.D., Knowles N.J.; RT "FRAGMAP: a program for restriction map comparison."; RL Nucleic Acids Res. 16:1779-1787(1988). KW NUCLEIC ACID; RESTRICTION MAP. // ID GIA7001 RA Gibbs A.J., McIntyre G.A.; RT "The diagram: a method for comparing sequences. Its use with amino RT acid and nucleotide sequences."; RL Eur. J. Biochem. 16:1-11(1970). // ID GIJ8701 RA Gibrat J.-F., Garnier J., Robson B.; RT "Further developments of protein secondary structure prediction using RT information theory. New parameters and consideration of residue RT pairs."; RL J. Mol. Biol. 198:425-443(1987). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID GII8401 RA Giles I.G.; RT "A microcomputer implementation of the DIAGON sequence comparison and RT alignment program."; RL Biochem. Soc. Trans. 12:1101-1101(1984). KW ALIGNMENT; DOT MATRIX. // ID GIT7801 RA Gingeras T.R., Milazzo J.P., Roberts R.J.; RT "A computer assisted method for the determination of restriction RT enzyme recognition sites."; RL Nucleic Acids Res. 5:4105-4127(1978). KW NUCLEIC ACID; RESTRICTION SITE. // ID GIT7901 RA Gingeras T.R., Milazzo J.P., Scialky D., Roberts R.J.; RT "Computer programs for the assembly of DNA sequences."; RL Nucleic Acids Res. 7:529-545(1979). KW NUCLEIC ACID; SEQUENCE ASSEMBLY. // ID GIT8201 RA Gingeras T.R., Rice P.J., Roberts R.J.; RT "A semi-automated method for the reading of nucleic acid sequencing RT gels."; RL Nucleic Acids Res. 10:103-114(1982). KW NUCLEIC ACID; GEL SCANNING. // ID GIT8001 RA Gingeras T.R., Roberts R.J.; RT "Steps toward computer analysis of nucleotide sequences."; RL Science 209:1322-1328(1980). KW NUCLEIC ACID; SOFTWARE PACKAGE; REVIEW. // ID GIM8701 RA Ginsburg M.; RT "Online services."; RL (In) Nucleic acid and protein sequence analysis a practical approach, RL Bishop M.J., Rawlings C.J., Eds., pp359-385, IRL Press, Oxford, (1987). KW COMPUTING RESOURCE; BIONET; REVIEW. // ID GOM8601 RA Go M.; RT "Protein conformation and gene evolution."; RL Protein, Nucleic Acid and Enzyme 29:90-100(1986). KW PROTEIN; 3D STRUCTURE; THEORY; PHYLOGENY. CC In Japanese. // ID GON8301 RA Go N.; RT "Theoretical studies of protein folding."; RL Ann. Rev. Biophys. Bioeng. 12:183-210(1983). KW PROTEIN; 3D STRUCTURE; THEORY; REVIEW. // ID GON8302 RA Go N., Abe H.; RT "Randomness of the process of protein folding."; RL Int. J. Pept. Prot. Res. 22:622-632(1983). KW PROTEIN; 3D STRUCTURE; THEORY. // ID GON7801 RA Go N., Taketomi H.; RT "Respective roles of short- and long-range interactions in protein RT folding."; RL Proc. Natl. Acad. Sci. USA 75:559-563(1978). KW PROTEIN; 3D STRUCTURE; THEORY. // ID GON7901 RA Go N., Taketomi H.; RT "Studies on protein folding, unfolding and fluctuations by computer RT simulation. III. Effect of short-range interactions."; RL Int. J. Pept. Prot. Res. 13:235-252(1979). KW PROTEIN; 3D STRUCTURE; THEORY; PREDICTION. // ID GON7902 RA Go N., Taketomi H.; RT "Studies on protein folding, unfolding and fluctuations by computer RT simulation. IV. Hydrophobic interactions."; RL Int. J. Pept. Prot. Res. 13:447-461(1979). KW PROTEIN; 3D STRUCTURE; THEORY; PREDICTION. // ID GOW8601 RA Goad W.B.; RT "Computational analysis of genetic sequences."; RL Ann. Rev. Biophys. Biophys. Chem. 15:79-95(1986). KW REVIEW. // ID GOW8201 RA Goad W.B., Kanehisa M.I.; RT "Pattern recognition in nucleic acid sequences I: A general method for RT finding local homologies and symmetries."; RL Nucleic Acids Res. 10:247-263(1982). KW NUCLEIC ACID; PATTERN. // ID GOT8201 RA Gojobory T., Ishii K., Nei M.; RT "Estimation of average number of nucleotide substitutions when the rate RT of substitution varies with nucleotide."; RL J. Mol. Evol. 18:414-423(1982). KW PHYLOGENY; EVOLUTIONARY DISTANCE. // ID GOG8301 RA Golding G.B.; RT "Estimates of DNA and protein sequence divergence: an examination of RT some assumptions."; RL Mol. Biol. Evol. 1:125-142(1983). KW PHYLOGENY. // ID GOE8601 RA Golovanov E.I., Nedospasov S.A.; RT "An effective approach to the identification of subclones of a DNA of RT known nucleotide sequence."; RL CABIOS 2:297-299(1986). KW NUCLEIC ACID. // ID GOM7401 RA Goodman M., Moore G.W., Barnabas J., Matsuda G.; RT "The phylogeny of human globin genes investigated by the maximum RT parsimony method."; RL J. Mol. Evol. 3:1-48(1974). KW PHYLOGENY. // ID GOA7301 RA Gordon A.D.; RT "A sequence-comparison statistic and algorithm."; RL Biometrika 60:197-200(1973). // ID GOO8201 RA Gotoh O.; RT "An improved algorithm for matching biological sequences."; RL J. Mol. Biol. 162:705-708(1982). KW ALIGNMENT. // ID GOO8601 RA Gotoh O.; RT "Alignment of three biological sequences with an efficient traceback RT procedure."; RL J. Theor. Biol. 121:327-337(1986). KW MULTIPLE ALIGNMENT. // ID GOO8701 RA Gotoh O.; RT "Pattern matching of biological sequences with limited storage."; RL CABIOS 3:17-20(1987). KW ALIGNMENT; PATTERN. // ID GOO8602 RA Gotoh O., Tagashira Y.; RT "Sequence search on a supercomputer."; RL Nucleic Acids Res. 14:57-64(1986). // ID GOE8401 RA Gough E.J., Gough N.M.; RT "Direct calculation of the sizes of DNA fragments separated by gel RT electrophoresis using programmes written for a pocket calculator."; RL Nucleic Acids Res. 12:845-853(1984). // ID GOM8701 RA Gouy M.; RT "Secondary structure prediction of RNA."; RL (In) Nucleic acid and protein sequence analysis a practical approach, RL Bishop M.J., Rawlings C.J., Eds., pp359-385, IRL Press, Oxford, (1987). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION; REVIEW. // ID GOM8501 RA Gouy M., Gautier C., Attimonelli M., Lanave C., DiPaola G.; RT "ACNUC - a portable retrieval system for nucleic acid sequence RT databases: logical and physical designs and usage."; RL CABIOS 1:167-172(1985). KW NUCLEIC ACID; DATA BANK. // ID GOM8502 RA Gouy M., Gautier C., Milleret F.; RT "System analysis and nucleic acid sequence banks."; RL Biochimie 67:433-436(1985). KW NUCLEIC ACID; DATA BANK. // ID GOM8503 RA Gouy M., Marliere P., Papanicolaou C., Ninio J.; RT "Prediction of secondary structures of nucleic acids: algorithmic and RT physical aspects."; RL Biochimie 67:523-531(1985). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID GOM8401 RA Gouy M., Milleret F., Mugnier C., Jacobzone M., Gautier C.; RT "ACNUC: a nucleic acid sequence data base and analysis system."; RL Nucleic Acids Res. 12:121-127(1984). KW NUCLEIC ACID; SOFTWARE PACKAGE. // ID GRR7401 RA Grantham R.; RT "Amino acid difference formula to help explains protein evolution."; RL Science 185:862-864(1974). KW PROTEIN. // ID GRA8401 RA Gray A.J., Beecher D.E., Olson M.V.; RT "Computer-based image analysis of one-dimensional electrophoretic gels RT used for the separation of DNA restriction fragments."; RL Nucleic Acids Res. 12:473-491(1984). KW NUCLEIC ACID; GEL SCANNING; RESTRICTION FRAGMENT. // ID GRW8401 RA Gray M.W., Sankoff D., Cedergren R.J.; RT "On the evolutionary descent of organisms and organelles: a global RT phylogeny based on a highly conserved structural core in small subunit RT ribosomal RNA."; RL Nucleic Acids Res. 12:5837-5852(1984). KW PHYLOGENY. // ID GRJ8501 RA Greer J.; RT "Protein structure and function by comparative model building."; RL Ann. NY. Acad. Sci. 439:44-63(1985). KW PROTEIN. // ID GRM8601 RA Gribskov M., Burgess R.R., Devereux J.; RT "PEPPLOT, a protein secondary structure analysis program for the UWGCG RT sequence analysis software package."; RL Nucleic Acids Res. 14:327-334(1986). KW PROTEIN. // ID GRM8401 RA Gribskov M., Devereux J., Burgess R.R.; RT "The codon preference plot: graphic analysis of protein coding RT sequences and prediction of gene expression."; RL Nucleic Acids Res. 12:539-549(1984). KW NUCLEIC ACID; CODING SEQUENCE IDENTIFICATION. // ID GRM8801 RA Gribskov M., Homyak M., Edenfield J., Eisenberg D.; RT "Profile scanning for three-dimensional structural patterns in protein RT sequences."; RL CABIOS 4:61-66(1988). KW PROTEIN. // ID GRM8701 RA Gribskov M., McLachlan M., Eisenberg D.; RT "Profile analysis: detection of distantly related proteins."; RL Proc. Natl. Acad. Sci. USA 84:4355-4358(1987). // ID GRU8701 RA Grob U., Stuber K.; RT "GENEXPERT, a program system for nucleic acid sequence structural RT interpretation."; RL CABIOS 3:243-244(1987). KW NUCLEIC ACID; SOFTWARE PACKAGE; VAX; PASCAL. // ID GRU8801 RA Grob U., Stuber K.; RT "Recognition of ill-defined signals in nucleic acid sequences."; RL CABIOS 4:79-88(1988). KW NUCLEIC ACID; PATTERN; PROMOTERS; TRNA; PASCAL; VAX. // ID GRE8601 RA Gross E., Duane J.; RT "Protein graphics: historical development, future directions and RT microcomputer applications."; RL CABIOS 2:173-179(1986). KW PROTEIN; 3D STRUCTURE; REPRESENTATION. // ID GRH8601 RA Gross R.H.; RT "A DNA sequence analysis program for the Apple Macintosh."; RL Nucleic Acids Res. 14:591-596(1986). KW NUCLEIC ACID; APPLE MACINTOSH. // ID GRC8801 RA Grunwald C., Bork P.; RT "Pattern search in sequence data bases: facilities of the computer RT program PAT."; RL (In) Abstracts of: Application of data bases and microcomputers in RL molecular biology, pp.44-44, Jena (1988). KW PROTEIN; PATTERN; FORTRAN. // ID GRR8601 RA Grymes R.A., Travers P., Engelberg A.; RT "GEL - A computer tool for DNA sequencing projects."; RL Nucleic Acids Res. 14:87-98(1986). KW NUCLEIC ACID; SEQUENCE ASSEMBLY. // ID GUH8501 RA Guy H.R.; RT "Amino acid side-chain partition energies and distribution of residues in RT soluble proteins."; RL Biophys. J. 47:61-70(1985). KW PROTEIN; HYDROPHOBICITY; SCALE. // ID HAJ7001 RA Haber J.E., Koshland D.E. Jr.; RT "An evaluation of the relatedness of proteins based on comparison of RT amino acid sequences."; RL J. Mol. Biol. 50:617-639(1970). KW PROTEIN. // ID HAA7801 RA Hagler A.T., Honig B.; RT "On the formation of protein tertiary structure on a computer."; RL Proc. Natl. Acad. Sci. USA 75:554-558(1978). KW PROTEIN; 3D STRUCTURE; PREDICTION. // ID HAJ8501 RA Haiech J., Sallantin J.; RT "Computer search of calcium binding sites in a gene data bank: use of RT learning techniques to build and expert system."; RL Biochimie 67:555-560(1985). KW PROTEIN; EXPERT SYSTEM; PATTERN. // ID HAJ8801 RA Hall J.D., Myers E.W.; RT "A software tool for finding locally optimal alignments in protein and RT nucleic acid sequences."; RL CABIOS 4:35-40(1988). KW ALIGNMENT. // ID HAC8601 RA Hamm C.W., Wilson W.E., Harvan D.J.; RT "Peptide sequencing program."; RL CABIOS 2:115-118(1986). KW PROTEIN. // ID HAG8601 RA Hamm G.H., Cameron G.N.; RT "The EMBL data library."; RL Nucleic Acids Res. 14:5-9(1986). KW NUCLEIC ACID; DATA BANK. // ID HAS8801 RA Hamodrakas S.J.; RT "A protein secondary structure prediction scheme for the IBM PC and RT compatibles."; RL CABIOS 4:473-477(1988). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION; FORTRAN; IBM-PC. // ID HAE8101 RA Hamori E.; RT "Computer-based abstract representations of very long nucleotide RT sequences."; RL Fed. Proc. 40:1647-1647(1981). KW NUCLEIC ACID; SEQUENCE REPRESENTATION. // ID HAE8501 RA Hamori E.; RT "Novel DNA sequence representations."; RL Nature 314:585-585(1985). KW NUCLEIC ACID; SEQUENCE REPRESENTATION. // ID HAE8301 RA Hamori E., Ruskin J.; RT "H curves, a novel method of representation of nucleotide series RT especially suited for long DNA sequences."; RL J. Biol. Chem. 258:1318-1327(1983). KW NUCLEIC ACID; SEQUENCE REPRESENTATION. // ID HAG8501 RA Hannon G.J., Jentoft J.E.; RT "Molecular Designer: an interactive program for the display of protein RT structure on the IBM-PC."; RL CABIOS 1:177-181(1985). KW PROTEIN; 3D STRUCTURE; REPRESENTATION; IBM-PC. // ID HAE8601 RA Harley E.H.; RT "A general DNA analysis program for the Hewlett-Packard Model 86/87 RT microcomputer."; RL Nucleic Acids Res. 14:467-477(1986). KW NUCLEIC ACID. // ID HAR8601 RA Harr R., Fallman P., Haggstrom M., Wahlstrom L., Gustafsson P.; RT "GENEUS, a computer system for DNA and protein sequence analysis RT containing an information retrieval system for the EMBL data RT library."; RL Nucleic Acids Res. 14:273-284(1986). KW NUCLEIC ACID; PROTEIN; SOFTWARE PACKAGE; FORTRAN; PASCAL; VAX. // ID HAR8201 RA Harr R., Hagblom P., Gustafsson P.; RT "Two-dimensional graphic analysis of DNA sequence homologies."; RL Nucleic Acids Res. 10:365-374(1982). KW NUCLEIC ACID; DOT MATRIX. // ID HAR8301 RA Harr R., Haggstrom M., Gustafsson P.; RT "Search algorithm for pattern match analysis of nucleic acid RT sequences."; RL Nucleic Acids Res. 11:2943-2957(1983). KW NUCLEIC ACID; PATTERN. // ID HAK8401 RA Hayashi K., Munakata N.; RT "Basically musical."; RL Nature 310:96-96(1984). KW NUCLEIC ACID; SEQUENCE REPRESENTATION. // ID HEM8201 RA Hendy M.D., Penny D.; RT "Branch and bound algorithms to determine minimal evolutionary trees."; RL Math. Biosci. 59:277-290(1982). KW PHYLOGENY. // ID HEC8901 RA Henneke C.M.; RT "A multiple sequence alignment algorithm for homologous proteins using RT secondary structure information and optionally keying alignments to RT functionally important sites."; RL CABIOS 5:141-150(1989). KW PROTEIN; MULTIPLE ALIGNMENT; ALGORITHM. // ID HID8701 RA Higgins D.G., Gouy M.; RT "Interfacing similarity search software with the sequence retrieval RT system ACNUC."; RL CABIOS 3:239-241(1987). KW SIMILARITY SEARCH; SOFTWARE PACKAGE; FORTRAN. // ID HID8801 RA Higgins D.G, Sharp P.M.; RT "CLUSTAL: a package for performing multiple sequence alignment on a RT microcomputer."; RL Gene 73:237-244(1988). KW MULTIPLE ALIGNMENT; FORTRAN; IBM PC. // ID HID8901 RA Higgins D.G, Sharp P.M.; RT "Fast and sensitive multiple sequence alignments on a microcomputer."; RL CABIOS 5:151-153(1989). KW MULTIPLE ALIGNMENT; FORTRAN; IBM PC. // ID HIP8501 RA Hinds P.W., Blake R.D.; RT "Delineation of coding areas in DNA sequences through assignment of RT codon probabilities."; RL J. Biomol. Struct. Dyn. 3:543-549(1985). KW NUCLEIC ACID; CODING SEQUENCE IDENTIFICATION. // ID HOT8601 RA Hodgman T.C.; RT "The elucidation of protein function from its amino acid sequence."; RL CABIOS 2:181-187(1986). KW PROTEIN; REVIEW. // ID HOT8901 RA Hodgman T.C.; RT "The elucidation of protein function by sequence motif analysis."; RL CABIOS 5:1-14(1989). KW PROTEIN; PATTERN; REVIEW. // ID HOP8401 RA Hogeweg P., Hesper B.; RT "Energy directed folding of RNA sequences."; RL Nucleic Acids Res. 12:67-74(1984). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID HOP8402 RA Hogeweg P., Hesper B.; RT "The alignment of sets of sequences and the construction of RT phylogenetic trees. An integrated method."; RL J. Mol. Evol. 20:175-186(1984). KW PHYLOGENY. // ID HOC8501 RA Holden C.; RT "An omnifarious data bank for biology ?"; RL Science 228:1412-1413(1985). KW DATA BANK. // ID HOC8801 RA Hollister C.; RT "PROPHET - a national computing resource for life science research."; RL Nucleic Acids Res. 16:1873-1875(1988). KW COMPUTING RESOURCE. // ID HOR7801 RA Holmquist R.; RT "A measure of the denseness of a phylogenetic network."; RL J. Mol. Evol. 11:225-231(1978). KW PHYLOGENY. // ID HOR7802 RA Holmquist R.; RT "Evaluation of compositional nonrandomness in proteins."; RL J. Mol. Evol. 11:349-360(1978). // ID HOR7803 RA Holmquist R.; RT "The Reh theory of protein and nucleic acid divergence: a RT retrospective update."; RL J. Mol. Evol. 11:361-374(1978). KW PHYLOGENY. // ID HOR7804 RA Holmquist R.; RT "The augmentation algorithm and molecular phylogenetic trees."; RL J. Mol. Evol. 12:17-24(1978). KW PHYLOGENY. // ID HOR7901 RA Holmquist R.; RT "The method of parsimony: an experimental test and theoretical RT analysis of the adequacy of molecular restoration studies."; RL J. Mol. Biol. 135:939-958(1979). KW PHYLOGENY. // ID HOR7902 RA Holmquist R.; RT "Molecular phylogenetic trees: on the validity of the Goodman-Moore RT augmentation algorithm."; RL J. Mol. Evol. 13:173-178(1979). KW PHYLOGENY. // ID HOR7201 RA Holmquist R., Cantor C.R., Jukes T.H.; RT "Improved procedures for comparing homologous sequences in molecules RT of proteins and nucleic acids."; RL J. Mol. Biol. 64:145-161(1972). KW PROTEIN; NUCLEIC ACID; HOMOLOGY. // ID HOR8101 RA Holmquist R., Conroy T.; RT "The estimation of genetic divergence."; RL J. Mol. Evol. 17:167-181(1981). KW PHYLOGENY. // ID HOR8301 RA Holmquist R., Goodman M., Conroy T., Czelusniak J.; RT "The spatial distribution of fixed mutations within genes coding for RT proteins."; RL J. Mol. Evol. 19:437-448(1983). // ID HOT8701 RA Hopp T.P.; RT "Identification of proteins surfaces and interaction sites by RT hydrophilicity analysis."; RL (In) Proteins: structure and function, L'Italien J.J., Ed., pp437-443, RL Plenum, New-York, (1987). KW PROTEIN; ANTIGENIC DETERMINANT; PREDICTION; HYDROPHOBICITY. // ID HOT8101 RA Hopp T.P., Woods K.R.; RT "Prediction of protein antigenic determinants from amino acid RT sequences."; RL Proc. Natl. Acad. Sci. USA 78:3824-3828(1981). KW PROTEIN; ANTIGENIC DETERMINANT; PREDICTION; HYDROPHOBICITY. // ID HOT8301 RA Hopp T.P., Woods K.R.; RT "A computer program for predicting protein antigenic determinants."; RL Mol. Immunol. 20:483-489(1983). KW PROTEIN; ANTIGENIC DETERMINANT; PREDICTION. // ID HON8801 RA Howell N., Howell B.; RT "A string-searching program for mutational analysis."; RL J. Mol. Biol. 203:618-618(1988). KW NUCLEIC ACID; VAX. // ID HOP8701 RA Hoyle P.; RT "Use of commercial software on IBM personal computers."; RL (In) Nucleic acid and protein sequence analysis a practical approach, RL Bishop M.J., Rawlings C.J., Eds., pp359-385, IRL Press, Oxford, (1987). KW SOFTWARE PACKAGE; REVIEW; IBM-PC. // ID HUR8601 RA Hubbard R.E.; RT "HYDRAS: current and future developments."; RL (In) Computer graphics and molecular modeling, Fletterick R., RL Zoller M., Eds., pp9-11, Cold Spring Harbor Laboratory, New-York, (1986). // ID HUT8701 RA Hubbard T.J.P., Blundell T.L.; RT "Comparison of solvent inaccessible cores of homologous proteins: RT definitions useful for protein modelling."; RL Protein Engineering 1:159-171(1987). KW PROTEIN. // ID HUL8701 RA Hunt L.T., George D.G., Barker W.C.; RT "Short segment searches for compositional similarities in proteins."; RL Fed. Proc. 46:2231-2231(1987). KW PROTEIN; SIMILARITY SEARCH. // ID ISS8901 RA Islam S.A., Sternberg M.J.E.; RT "A relational database of protein structures designed for flexible RT enquiries about conformation."; RL Protein Engineering 2:431-442(1989). KW PROTEIN; TERTIARY STRUCTURE; DATA BANK. // ID ISK8201 RA Isono K.; RT "STRAIN, a computer program for storing information about bacterial RT strains."; RL Mol. Gen. Genet. 186:493-496(1982). // ID ISK8202 RA Isono K.; RT "Computer programs to analyze DNA and amino acid sequence data."; RL Nucleic Acids Res. 10:85-89(1982). KW NUCLEIC ACID; PROTEIN; SOFTWARE PACKAGE. // ID ISK8401 RA Isono K.; RT "A computer program package for storing and retrieving DNA/RNA and RT protein sequence data."; RL Nucleic Acids Res. 12:101-112(1984). KW NUCLEIC ACID; PROTEIN; SOFTWARE PACKAGE; FORTRAN. // ID ITA8601 RA Ito A., Miyajima N., Uchida H.; RT "Biosequence analysis system on a VAX computer."; RL Protein, Nucleic Acid and Enzyme 29:177-186(1986). KW VAX. CC In Japanese. // ID IUP6801 RA IUPAC-IUB Commission on Biochemical Nomenclature.; RT "A one-letter notation for amino acid sequences: tentative rules."; RL J. Biol. Chem. 243:3557-3559(1968). KW PROTEIN; NOMENCLATURE. // ID IUP6601 RA IUPAC-IUB Commission on Biochemical Nomenclature.; RT "Abbreviated designation of amino acid derivatives and peptides, RT tentative rules."; RL J. Biol. Chem. 241:2491-2495(1966). KW PROTEIN; NOMENCLATURE. // ID JAA8401 RA Jacobson A.B., Good L., Simonetti J., Zuker M.; RT "Some simple computational methods to improve the folding of large RT RNAs."; RL Nucleic Acids Res. 12:45-52(1984). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID JAA8501 RA Jacobson A.B., Kumar H., Zuker M.; RT "Effect of spermidine on the conformation of bacteriophage MS2 RNA. RT Electron microscopy and computer modeling."; RL J. Mol. Biol. 181:517-531(1985). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID JAP8201 RA Jagadeeswaran P., McGuire P.M. Jr.; RT "Interactive computer program in sequence analysis."; RL Nucleic Acids Res. 10:433-447(1982). // ID JAB8801 RA Jameson B.A., Wolf H.; RT "The antigenic index: a novel algorithm for predicting antigenic RT determinants."; RL CABIOS 4:181-186(1988). KW PROTEIN; ANTIGENIC DETERMINANT; PREDICTION; ALGORITHM; VAX; FORTRAN. // ID JAJ7901 RA Janin J.; RT "Surface and inside volumes in globular proteins."; RL Nature 277:491-492(1979). KW PROTEIN; 3D STRUCTURE; THEORY. // ID JER8601 RA Jemmerson R., Paterson Y.; RT "Mapping antigenic sites on proteins: implication for the design of RT synthetic vaccines."; RL Biotechniques 4:18-31(1986). KW PROTEIN; ANTIGENIC DETERMINANT. // ID JEH8701 RA Jenson H.B.; RT "Two computer programs for rapid entry of DNA sequence data."; RL CABIOS 3:283-286(1987). KW NUCLEIC ACID; DATA ENTRY; IBM-PC. // ID JEH8801 RA Jenson H.B.; RT "Enhancement of DNA sequence computer programs by using digitized voice RT output."; RL CABIOS 4:218-218(1988). KW NUCLEIC ACID; SPEECH SYNTHESIZER; C LANGUAGE; IBM-PC. // ID JEW8801 RA Jentsch W., Kaden F., Koch I., Selbig J.; RT "GPEE: an expert system integrated protein design tool." RL (In) Abstracts of: Application of data bases and microcomputers in RL molecular biology, pp.31-32, Jena (1988). KW PROTEIN; TERTIARY STRUCTURE; EXPERT SYSTEM. // ID JER8801 RA Jerala R., Turk V.; RT "REGEN: a program for designing gene assembly."; RL Nucleic Acids Res. 16:1759-1766(1988). KW NUCLEIC ACID. // ID JIM8401 RA Jimenez-Montano M.A.; RT "On the syntactic structure of protein sequences and the concept of RT grammar complexity."; RL Bull. Math. Biol. 46:641-659(1984). KW PROTEIN. // ID JOM8401 RA Johnsen M.; RT "JINN, an integrated software package for molecular biologist."; RL Nucleic Acids Res. 12:657-664(1984). KW SOFTWARE PACKAGE. // ID JOL8901 RA Johnson L.M.; RT "End-user searching of biotech databases."; RL Biotechnology 7:378-379(1989). KW NUCLEIC ACID; PROTEIN; DATA BANK. // ID JOM8601 RA Johnson M.S., Doolitle R.F.; RT "A method for the simultaneous alignment of three or more amino acid RT sequences."; RL J. Mol. Evol. 23:267-278(1986). KW MULTIPLE ALIGNMENT. // ID JOR8601 RA Johnston R.E., Mackenzie J.M. Jr., Dougherty W.G.; RT "Assembly of overlapping DNA sequences by a program written in BASIC RT for 64K CP/M and MS-DOS IBM-compatible microcomputers."; RL Nucleic Acids Res. 14:517-527(1986). KW NUCLEIC ACID; SEQUENCE ASSEMBLY; BASIC; IBM-PC. // ID JOD7501 RA Jones D.D.; RT "Amino acid properties and side-chain orientations in proteins: a RT cross correlation approach."; RL J. Theor. Biol. 50:167-183(1975). KW PROTEIN. // ID JON8401 RA Jones M.D.; RT "DNA sequence analysis and the computer."; RL Biochem. Soc. Trans. 12:1018-1020(1984). KW NUCLEIC ACID. // ID JOT7801 RA Jones T.A.; RT "A graphics model building and refinement system for macromolecules."; RL J. Appl. Cryst. 11:268-272(1978). KW PROTEIN; TERTIARY STRUCTURE. // ID JOT8501 RA Jones T.A.; RT "Interactive computer graphics: FRODO."; RL Methods in Enzymology 115:157-171(1985). KW PROTEIN; TERTIARY STRUCTURE; REPRESENTATION. // ID JOT8601 RA Jones T.A.; RT "Using known substructures in protein model building and RT crystallography."; RL EMBO J. 5:819-822(1986). KW PROTEIN; TERTIARY STRUCTURE. // ID JUT8301 RA Jukes T.H.; RT "Evolution of the amino acid codes: inferences from mitochondrial RT codes."; RL J. Mol. Evol. 19:219-225(1983). // ID JUT8401 RA Jukes T.H., Kimura M.; RT "Evolutionary constraints and the neutral theory."; RL J. Mol. Evol. 21:90-92(1984). KW PHYLOGENY. // ID JUJ8401 RA Jungck J.R., Friedman R.M.; RT "Mathematical tools for molecular genetics data: an annotated RT bibliography."; RL Bull. Math. Biol. 46:699-744(1984). KW NUCLEIC ACID; PROTEIN; BIBLIOGRAPHY. // ID KAE8501 RA Kabat E.A.; RT "Immunoglobulin sequence data. The generation of antibody diversity RT and its genetic control."; RL (In) The role of data in scientific progress, Glaeser P.S., Ed., RL pp97-102, Elsevier, North Holland, (1985). KW PROTEIN; DATA BANK. // ID KAE7301 RA Kabat E.A., Wu T.T.; RT "The influence of nearest-neighbor amino acids on the conformation RT of the middle amino acid in proteins: comparison of predicted and RT experimental determination of beta-sheets in concanavalin A."; RL Proc. Natl. Acad. Sci. USA 70:1473-1477(1973). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID KAE7302 RA Kabat E.A., Wu T.T.; RT "The influence of nearest-neighboring amino acids residues on aspects RT of secondary structure of proteins. Attempts to locate alpha-helices RT and beta-sheets."; RL Biopolymers 12:751-754(1973). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID KAE7401 RA Kabat E.A., Wu T.T.; RT "Further comparison of predicted and experimentally determined RT structure of adenylate kinase."; RL Proc. Natl. Acad. Sci. USA 71:4217-4220(1974). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID KAW8301 RA Kabsch W., Sander C.; RT "How good are predictions of protein secondary structure ?"; RL FEBS Letters 155:179-182(1983). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID KAW8302 RA Kabsch W., Sander C.; RT "Dictionary of protein secondary structure: pattern recognition of RT hydrogen-bonded and geometrical features."; RL Biopolymers 22:2577-2637(1983). KW PROTEIN; SECONDARY STRUCTURE; DATA BANK; ALGORITHM. // ID KAW8401 RA Kabsch W., Sander C.; RT "On the use of sequence homologies to predict protein structure: RT identical pentapeptides can have completely different conformations."; RL Proc. Natl. Acad. Sci. USA 81:1075-1078(1984). KW PROTEIN; 3D STRUCTURE; HOMOLOGY. // ID KAW8201 RA Kabsch W., Sander C., Trifonov E.N.; RT "The ten helical twist angles of B-DNA."; RL Nucleic Acids Res. 10:1097-1104(1982). KW NUCLEIC ACID; DNA; SECONDARY STRUCTURE; THEORY. // ID KAY8801 RA Kalambet Y.A., Alexandrov A.A.; RT "Nucleic acids functional signal database project."; RL (In) Abstracts of: Application of data bases and microcomputers in RL molecular biology, pp.22-22, Jena (1988). KW NUCLEIC ACID; DATA BANK; PATTERN. // ID KAN8901 RA Kanaoka M., Kishimoto F., Ueki Y., Umeyama H.; RT "Alignment of protein sequences using the hydrophobic core scores."; RL Protein Engineering 2:347-351(1989). KW PROTEIN; ALIGNMENT; ALGORITHM. // ID KAM8201 RA Kanehisa M.I.; RT "Los Alamos sequence analysis package for nucleic acids and proteins."; RL Nucleic Acids Res. 10:183-196(1982). KW SOFTWARE PACKAGE. // ID KAM8401 RA Kanehisa M.I.; RT "Use of statistical criteria for screening potential homologies in RT nucleic acid sequences."; RL Nucleic Acids Res. 12:203-213(1984). KW NUCLEIC ACID; STATISTIC; HOMOLOGY; ALGORITHM. // ID KAM8601 RA Kanehisa M.I.; RT "Design and application of DNA and protein data banks."; RL Protein, Nucleic Acid and Enzyme 29:187-194(1986). KW NUCLEIC ACID; PROTEIN; DATA BANK. CC In Japanese. // ID KAM8402 RA Kanehisa M.I., Fickett J.W., Goad W.B.; RT "A relational database system for the maintenance and verification of RT the Los Alamos sequence library."; RL Nucleic Acids Res. 12:149-158(1984). // ID KAM8202 RA Kanehisa M.I., Goad W.B.; RT "Pattern recognition in nucleic acid sequences II: An efficient method RT for finding locally stable secondary structure."; RL Nucleic Acids Res. 10:265-278(1982). KW NUCLEIC ACID; SECONDARY STRUCTURE; PREDICTION; PATTERN. // ID KAM8403 RA Kanehisa M.I., Klein P., Greif P., DeLisi C.; RT "Computer analysis and structure prediction of nucleic acids and RT proteins."; RL Nucleic Acids Res. 12:417-428(1984). // ID KAV8801 RA Kapitonov V.V.; RT "Bank of viruses, phages and plasmids genomes."; RL (In) Abstracts of: Application of data bases and microcomputers in RL molecular biology, pp.27-27, Jena (1988). KW NUCLEIC ACID; DATA BANK; PLASMID. // ID KAS8901 RA Karlin S., Blaisdell B.E., Mocarski E.S., Brendel V.; RT "A method to identify distinctive charge configurations in protein RT sequences, with applications to human herpesvirus polypeptides."; RL J. Mol. Biol. 205:165-177(1989). KW PROTEIN; STATISTIC; ALGORITHM. // ID KAS8501 RA Karlin S., Ghandour G.; RT "Comparative statistics for DNA and protein sequences: single sequence RT statistics."; RL Proc. Natl. Acad. Sci. USA 82:5800-5804(1985). KW NUCLEIC ACID; PROTEIN; STATISTIC; RANDOM SEQUENCE; REPEATS. // ID KAS8301 RA Karlin S., Ghandour G., Ost F., Tavare S., Korn L.J.; RT "New approaches for computer analysis of nucleic acid sequences."; RL Proc. Natl. Acad. Sci. USA 80:5660-5664(1983). KW NUCLEIC ACID; HOMOLOGY; REPEATS; DYAD SYMMETRY; ALGORITHM. // ID KAS8801 RA Karlin S., Morris M., Ghandour G., Leung M.-Y.; RT "Algorithms for identifying local molecular sequence features."; RL CABIOS 4:41-51(1988). KW NUCLEIC ACID; HOMOLOGY; REPEATS; DYAD SYMMETRY; ALGORITHM; FORTRAN. // ID KAS8901 RA Karlin S., Ost F., Blaisdell B.E.; RT "Patterns in DNA and amino acid sequences and their statistical RT significance."; RL (In) Mathematical methods for DNA sequences, Waterman M.S., Ed., RL pp133-158, CRC Press, Boca Raton, (1989). KW NUCLEIC ACID; PROTEIN; PATTERN; STATISTIC. // ID KAP8501 RA Karplus P.A., Schulz G.E.; RT "Prediction of chain flexibility in proteins."; RL Naturwissenschaften 72:212-213(1985). KW PROTEIN; ANTIGENIC DETERMINANT. // ID KAY8601 RA Katsube Y.; RT "Tertiary structure and molecular evolution of protein."; RL Protein, Nucleic Acid and Enzyme 29:143-150(1986). KW PROTEIN; 3D STRUCTURE; PHYLOGENY. CC In Japanese. // ID KED8601 RA Keefer D.A.; RT "Word processing software to find specific restriction enzyme cleavage RT sites in DNA."; RL Biotechniques 4:313-314(1986). KW NUCLEIC ACID; RESTRICTION SITE; WORD PROCESSOR. // ID KEB8601 RA Keil B.; RT "Can protein data bank help to define the binding sites of proteolytic RT enzymes."; RL Protein, Nucleic Acid and Enzyme 29:11-21(1986). KW PROTEIN; DATA BANK; CLEAVAGE. CC In Japanese. // ID KEB8701 RA Keil B.; RT "Proteolysis data bank: specificity of alpha-chymotrypsin from RT computation of protein cleavage."; RL Protein Seq. Data Anal. 1:13-20(1987). KW PROTEIN; DATA BANK; CLEAVAGE. // ID KEB8702 RA Keil B.; RT "Databases in molecular biology: a CODATA task group at work."; RL Protein Seq. Data Anal. 1:123-126(1987). KW PROTEIN; NUCLEIC ACID; DATA BANK. // ID KEB8703 RA Keil B.; RT "Protein database network - an indispensable element of fundamental RT information in biology."; RL (In) Computer handling and dissemination of data, Glaeser P.S., Ed., RL pp368-372, Elsevier, North Holland, (1987). KW PROTEIN; DATA BANK. // ID KEP8101 RA Keim P., Heinrikson R.L., Fitch W.M.; RT "An examination of the expected degree of sequence similarity that RT might arise in proteins that have converged to similar conformational RT states."; RL J. Mol. Biol. 151:179-197(1981). KW PROTEIN; 3D STRUCTURE; HOMOLOGY. // ID KEC8401 RA Keller C., Corcoran M., Roberts R.J.; RT "Computer programs for handling nucleic acid sequences."; RL Nucleic Acids Res. 12:379-386(1984). KW NUCLEIC ACID; SOFTWARE PACKAGE. // ID KEJ8301 RA Kelly J.M., Meyer E.F. Jr.; RT "Storage and retrieval of nucleic acid sequence data."; RL Computers and Chemistry 4:107-111(1983). KW NUCLEIC ACID; FORTRAN; STORAGE METHOD. // ID KEL8701 RA Kelly L., Holladay L.A.; RT "Comparison of scales of amino acid sides chains properties by RT conservation during evolution of four proteins."; RL Protein Engineering 1:137-140(1987). KW PROTEIN; HYDROPHOBICITY; SECONDARY STRUCTURE; 3D STRUCTURE. // ID KIT8401 RA Kieser T.; RT "DNAGEL: a computer program for determining DNA sizes using a small RT computer equipped with a graphics tablet."; RL Nucleic Acids Res. 12:679-688(1984). KW NUCLEIC ACID. // ID KIM8001 RA Kimura M.; RT "A simple method for estimating evolutionary rates of base RT substitutions through comparative studies of nucleotide sequences."; RL J. Mol. Evol. 16:111-120(1980). KW PHYLOGENY. // ID KIM8001 RA Kimura M.; RT "A simple model for estimating evolutionary rates of base substitutions RT through comparative studies of nucleotide sequences."; RL J. Mol. Evol. 16:111-120(1980). KW PHYLOGENY; EVOLUTIONARY DISTANCE. // ID KIM8101 RA Kimura M.; RT "Estimation of evolutionary distances between homologous nucleotide RT sequences."; RL Proc. Natl. Acad. Sci. USA 78:454-458(1981). KW PHYLOGENY; EVOLUTIONARY DISTANCE. // ID KIM7201 RA Kimura M., Ohta T.; RT "On the stochastic model for estimation of mutational distance RT between homologous proteins."; RL J. Mol. Evol. 2:87-90(1972). KW PHYLOGENY. // ID KID8901 RA Kingsbury D.T. RT "Computational biology for biotechnology: Part 1. The role of the RT computational infrastructure."; RL Trends in Biotech. 7:82-87(1989). KW NUCLEIC ACID; PROTEIN; DATA BANK; COMPUTING RESOURCE; REVIEW. // ID KID8902 RA Kingsbury D.T. RT "Computational biology for biotechnology: Part 2. Applications of RT scientific computing in biotechnology."; RL Trends in Biotech. 7:126-132(1989). KW NUCLEIC ACID; PROTEIN; TERTIARY STRUCTURE; EXPERT SYSTEM; REVIEW. // ID KIT8801 RA Kirkwood T.B.L.; RT "Identification and analysis of DNA sequence homologies."; RL (In) Proceedings of the XIVth International Biometric Conference, RL pp157-168, Namur, (1988). KW NUCLEIC ACID; SIMILARITY SEARCH. // ID KLM7701 RA Klapper M.H.; RT "The independent distribution of amino acid near neighbor pairs into RT polypeptides."; RL Biochem. Biophys. Res. Commun. 78:1018-1024(1977). KW PROTEIN; STATISTIC; RANDOM SEQUENCE. // ID KLP8603 RA Klein P.; RT "Prediction of protein structural class by discriminant analysis."; RL Biochim. Biophys. Acta 874:205-215(1986). KW PROTEIN; STATISTIC; DISCRIMINANT ANALYSIS; ALGORITHM. // ID KLP8601 RA Klein P., DeLisi C.; RT "Prediction of protein structural class from the amino acid sequence."; RL Biopolymers 25:1659-1672(1986). KW PROTEIN; STATISTIC; DISCRIMINANT ANALYSIS; ALGORITHM. // ID KLP8602 RA Klein P., Jacquez J.A., DeLisi C.; RT "Prediction of protein function by discriminant analysis."; RL Math. Biosci. 81:177-189(1986). KW PROTEIN; FUNCTION PREDICTION; DISCRIMINANT ANALYSIS; ALGORITHM. // ID KLP8401 RA Klein P., Kanehisa M.I., DeLisi C.; RT "Prediction of protein function from sequence properties: discriminant RT analysis of a data base."; RL Biochim. Biophys. Acta 787:221-226(1984). KW PROTEIN; FUNCTION PREDICTION; DISCRIMINANT ANALYSIS; ALGORITHM. // ID KLP8501 RA Klein P., Kanehisa M.I., DeLisi C.; RT "The detection and classification of membrane-spanning proteins."; RL Biochim. Biophys. Acta 815:468-476(1985). KW PROTEIN; TRANSMEMBRANE REGION. // ID KLL8101 RA Klotz L.C., Blanken R.L.; RT "A practical method for calculating evolutionary trees from sequence RT data."; RL J. Theor. Biol. 91:261-272(1981). KW PHYLOGENY. // ID KLL7901 RA Klotz L.C., Komar N., Blanken R.L., Mitchell R.M.; RT "Calculation of evolutionary trees from sequence data."; RL Proc. Natl. Acad. Sci. USA 76:4516-4520(1979). KW PHYLOGENY. // ID KNG8501 RA Kneale G.G., Bishop M.J.; RT "Nucleic acid and protein sequence databases."; RL CABIOS 1:11-17(1985). KW NUCLEIC ACID; PROTEIN; DATA BANK. // ID KNG8401 RA Kneale G.G., Kennard O.; RT "The EMBL nucleotide sequence data library."; RL Biochem. Soc. Trans. 12:1011-1014(1984). KW NUCLEIC ACID; DATA BANK. // ID KOL8601 RA Kolakowski L.F. Jr.; RT "Limitations in the use of word processing software for searching for RT restriction enzyme sites in DNA sequences."; RL Biotechniques 4:101-101(1986). KW NUCLEIC ACID; RESTRICTION SITE; WORD PROCESSOR. // ID KOA8701 RA Kolaskar A.S.; RT "Analysis of biomacromolecular data."; RL (In) Computer handling and dissemination of data, Glaeser P.S., Ed., RL pp381-383, Elsevier, North Holland, (1987). KW NUCLEIC ACID; CODING SEQUENCE IDENTIFICATION. // ID KOA8501 RA Kolaskar A.S., Reddy B.V.B.; RT "A method to locate protein coding regions in DNA of prokaryotic RT systems."; RL Nucleic Acids Res. 13:185-194(1985). KW NUCLEIC ACID; CODING SEQUENCE IDENTIFICATION. // ID KOA8502 RA Kolaskar A.S., Reddy B.V.B.; RT "CDNA sequence data analysis of prokaryotic systems."; RL J. Biosciences 7:49-59(1985). KW NUCLEIC ACID. // ID KON8801 RA Kolchanov N.A.; RT "Data banks and packages of applied programmes and genetics."; RL (In) Abstracts of: Application of data bases and microcomputers in RL molecular biology, pp.24-24, Jena (1988). KW PROTEIN; NUCLEIC ACID; DATA BANK. // ID KOM8401 RA Komaromy M., Govan H.; RT "An inexpensive semi-automated sequence reader for the Apple II RT computer."; RL Nucleic Acids Res. 12:675-678(1984). KW NUCLEIC ACID; DATA ENTRY; APPLE II. // ID KOK8701 RA Konopka A.K., Smythers G.W.; RT "DISTAN - a program which detects significant distances between short RT oligonucleotides."; RL CABIOS 3:193-201(1987). KW NUCLEIC ACID. // ID KOL8401 RA Korn L.J., Queen C.L.; RT "Analysis of biological sequences on small computers."; RL DNA 3:421-436(1984). KW NUCLEIC ACID; PROTEIN; SOFTWARE PACKAGE; REVIEW; VAX; IBM-PC; APPLE II. // ID KOL7701 RA Korn L.J., Queen C.L., Wegman M.N.; RT "Computer analysis of nucleic acid regulatory sequences."; RL Proc. Natl. Acad. Sci. USA 74:4401-4405(1977). KW NUCLEIC ACID; REPEATS; DYAD SYMMETRY; PL/I. // ID KOM8601 RA Kotani M.; RT "A brief survey of the task group on coordination of protein sequence RT data banks and of its parent organization CODATA."; RL Protein, Nucleic Acid and Enzyme 29:8-10(1986). KW PROTEIN; DATA BANK. CC In Japanese. // ID KRV8701 RA Krchnak V., Mach O., Maly A.; RT "Computer prediction of potential immunogenic determinants from RT protein amino acid sequence."; RL Analytical Biochem. 165:200-207(1987). KW PROTEIN; ANTIGENIC DETERMINANT; PREDICTION; BASIC; IBM-PC. // ID KRW7901 RA Krigbaum W.R., Komoriya A.; RT "Local interactions as a structure determinant for protein molecules: RT II."; RL Biochim. Biophys. Acta 576:204-228(1979). KW PROTEIN; 3D STRUCTURE; THEORY. // ID KRW7902 RA Krigbaum W.R., Komoriya A.; RT "Local interactions as a structure determinant for protein molecules: RT III."; RL Biochim. Biophys. Acta 576:229-246(1979). KW PROTEIN; 3D STRUCTURE; THEORY. // ID KRG8601 RA Krishnan G., Kaul R.K., Jagadeeswaran P.; RT "DNA sequence analysis: a procedure to find homologies among many RT sequences."; RL Nucleic Acids Res. 14:543-550(1986). KW NUCLEIC ACID. // ID KRD8701 RA Kristofferson D.; RT "The BIONET electronic network."; RL Nature 325:555-556(1987). KW COMPUTING RESOURCE; BIONET. // ID KRM8201 RA Kroger M., Kroger-Block A.; RT "A flexible new computer program for handling DNA sequence data."; RL Nucleic Acids Res. 10:229-236(1982). KW NUCLEIC ACID; SOFTWARE PACKAGE; UNIVAC. // ID KRM8401 RA Kroger M., Kroger-Block A.; RT "Extension of a flexible computer program for handling DNA sequence RT data."; RL Nucleic Acids Res. 12:113-120(1984). KW NUCLEIC ACID; SOFTWARE PACKAGE; UNIVAC. // ID KRM8402 RA Kroger M., Kroger-Block A.; RT "Simplified computer programs for search of homology within nucleotide RT sequences."; RL Nucleic Acids Res. 12:193-201(1984). KW NUCLEIC ACID. // ID KRJ8301 RA Kruskal J.B.; RT "An overview of sequence comparison."; RL (In) Time warps, string edits, and macromolecules: the theory and RL practice of sequence comparison, Sankoff D., Kruskal J.B., Eds., RL pp1-44, Addison-Wesley, Reading, (1983). KW REVIEW. // ID KRJ8302 RA Kruskal J.B., Sankoff D.; RT "An anthology of algorithms and concepts for sequence comparison."; RL (In) Time warps, string edits, and macromolecules: the theory and RL practice of sequence comparison, Sankoff D., Kruskal J.B., Eds., RL pp265-310, Addison-Wesley, Reading, (1983). KW REVIEW. // ID KRS8501 RA Krystek S.R. Jr., Dias J.A., Reichert L.E. Jr., Andersen T.T.; RT "Prediction of antigenic sites in follicle-stimulating hormones: RT difference profiles enhance antigenicity prediction methods."; RL Endocrinology 117:1125-1131(1985). KW PROTEIN; HYDROPHOBICITY; ANTIGENIC DETERMINANT; PREDICTION. // ID KRS8502 RA Krystek S.R. Jr., Reichert L.E. Jr., Andersen T.T.; RT "Analysis of computer-generated hydropathy profiles for human RT glycoprotein and lactogenic hormones."; RL Endocrinology 117:1110-1124(1985). KW PROTEIN; HYDROPHOBICITY. // ID KUY8201 RA Kubota Y., Nishikawa K., Takahashi S., Ooi T.; RT "Correspondence of homologies in amino acid sequence and tertiary RT structure of protein molecules."; RL Biochim. Biophys. Acta 701:242-252(1982). KW PROTEIN; 3D STRUCTURE. // ID KUY8101 RA Kubota Y., Takahashi S., Nishikawa K., Ooi T.; RT "Homology in protein sequences expressed by correlation coefficients."; RL J. Theor. Biol. 91:347-361(1981). KW PROTEIN. // ID KUM8701 RA Kudo M., Lida Y., Shimbo M.; RT "Syntactic pattern analysis of 5'-splice site sequences of mRNA RT precursors in higher eukaryote genes."; RL CABIOS 3:319-324(1987). KW NUCLEIC ACID; SPLICE JUNCTIONS; PATTERN. // ID KUS8401 RA Kuhara S., Matsuo F., Futamura S., Fujita A., Shinohara T., Takagi T., RA Saskaki Y.; RT "GENAS: a database system for nucleic acid sequence analysis."; RL Nucleic Acids Res. 12:89-99(1984). KW NUCLEIC ACID. // ID KUT8701 RA Kunisawa T., Horimoto K., Otsuka J.; RT "Accumulation pattern of amino acid substitutions in protein RT evolution."; RL J. Mol. Evol. 24:357-365(1987). KW PHYLOGENY. // ID KUI7601 RA Kuntz I.D., Crippen G.M., Kollman P.A., Kimelman D.; RT "Calculation of protein tertiary structure."; RL J. Mol. Biol. 106:983-994(1976). KW PROTEIN; 3D STRUCTURE; PREDICTION. // ID KYJ8201 RA Kyte J., Doolitle R.F.; RT "A simple method for displaying the hydropathic character of a RT protein."; RL J. Mol. Biol. 157:105-132(1982). KW PROTEIN; HYDROPHOBICITY. // ID LAL8401 RA Lagrimini L.M., Brentano S.T., Donelson J.E.; RT "A DNA sequence analysis package for the IBM personal computer."; RL Nucleic Acids Res. 12:605-614(1984). KW NUCLEIC ACID; SOFTWARE PACKAGE; IBM-PC. // ID LAJ8701 RA Lake J.A.; RT "A rate-independent technique for analysis of nucleic acid sequences: RT evolutionary parsimony."; RL Mol. Biol. Evol. 4:167-191(1987). KW PHYLOGENY. // ID LAC8401 RA Lanave C., Peparata G., Saccone C., Serio G.; RT "A new method for calculating evolutionary substitution rates."; RL J. Mol. Evol. 20:86-93(1984). KW PHYLOGENY. // ID LAG8601 RA Landau G.M., Vishkin U., Nussinov R.; RT "An efficient string matching algorithm with k differences for RT nucleotide and amino acid sequences."; RL Nucleic Acids Res. 14:31-46(1986). KW ALIGNMENT; ALGORITHM. // ID LAG8701 RA Landau G.M., Vishkin U., Nussinov R.; RT "An efficient string matching algorithm with k substitutions for RT nucleotide and amino acid sequences."; RL J. Theor. Biol. 126:483-490(1987). KW ALIGNMENT; ALGORITHM. // ID LAG8801 RA Landau G.M., Vishkin U., Nussinov R.; RT "Locating alignments with k differences for nucleotide and amino acid RT sequences."; RL CABIOS 4:19-24(1988). KW ALIGNMENT; ALGORITHM. // ID LAE8901 RA Lander E.S.; RT "Analysis with restriction enzymes."; RL (In) Mathematical methods for DNA sequences, Waterman M.S., Ed., RL pp35-52, CRC Press, Boca Raton, (1989). KW NUCLEIC ACID; RESTRICTION MAP. // ID LAB8601 RA Lang B.F., Burger G.; RT "A collection of programs for nucleic acid and protein analysis, RT written in FORTRAN 77 for IBM-PC compatible microcomputers."; RL Nucleic Acids Res. 14:455-465(1986). KW NUCLEIC ACID; PROTEIN; SOFTWARE PACKAGE; IBM-PC; FORTRAN. // ID LAG8201 RA Lapalme G., Cedergren R.J., Sankoff D.; RT "An algorithm for the display of nucleic acid secondary structure."; RL Nucleic Acids Res. 10:8351-8356(1982). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; REPRESENTATION. // ID LAR8201 RA Larson R., Messing J.; RT "Apple II software for M13 shotgun DNA sequencing."; RL Nucleic Acids Res. 10:39-49(1982). KW NUCLEIC ACID; APPLE II. // ID LAR8301 RA Larson R., Messing J.; RT "Apple II computer software for DNA and protein sequence data."; RL DNA 2:31-35(1983). KW NUCLEIC ACID; PROTEIN; SOFTWARE PACKAGE; APPLE II. // ID LAR8501 RA Lathe R.; RT "Synthetic oligonucleotide probes deduced from amino acid sequence RT data. Theoretical and practical considerations."; RL J. Mol. Biol. 183:1-12(1985). KW NUCLEIC ACID; PROTEIN; PROBE SELECTION. // ID LAR8401 RA Lathe R., Findlay R.; RT "Machine-readable DNA sequences."; RL Nature 311:610-610(1984). KW NUCLEIC ACID; SEQUENCE REPRESENTATION. // ID LAR8502 RA Lathe R., Findlay R.; RT "Reply to Hamori's letter."; RL Nature 314:585-586(1985). KW NUCLEIC ACID; SEQUENCE REPRESENTATION. // ID LAJ8201 RA Lautenberger J.A.; RT "A program for reading DNA sequence gels using a small computer RT equipped with a graphic tablet."; RL Nucleic Acids Res. 10:27-30(1982). KW NUCLEIC ACID; GEL SCANNING. // ID LAC8601 RA Lawrence C.B.; RT "Data structures for DNA sequence manipulation."; RL Nucleic Acids Res. 14:205-216(1986). KW NUCLEIC ACID. // ID LAC8801 RA Lawrence C.B., Goldman D.A.; RT "Definition and identification of homology domains."; RL CABIOS 4:25-33(1988). KW ALIGNMENT; ALGORITHM; C LANGUAGE. // ID LAC8602 RA Lawrence C.B., Goldman D.A., Hood R.T.; RT "Optimized homology searches of the gene and protein sequence data RT banks."; RL Bull. Math. Biol. 48:569-583(1986). // ID LES8801 RA Le S.-Y., Chen J.-H., Currey K.M., Maizel J.V. Jr.; RT "A program for predicting significant RNA secondary structures."; RL CABIOS 4:153-159(1988). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID LES8802 RA Le S.-Y., Chen J.-H., Nussinov R., Maizel J.V. Jr.; RT "An improved secondary structure computation method and its application RT to intervening sequences in the human alpha-like globin mRNA precursors."; RL CABIOS 4:337-344(1988). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID LEG8401 RA Lennon G.G., Nussinov R.; RT "Homonyms, synonyms and mutations of the sequence/structure RT vocabulary."; RL J. Mol. Biol. 175:425-430(1984). // ID LEJ7701 RA Lenstra J.A.; RT "Evaluation of secondary structure predictions in proteins."; RL Biochim. Biophys. Acta 491:333-338(1977). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID LEA8401 RA Lesk A.M.; RT "The analysis of protein structures: new insights from a growing data RT base."; RL BioEssays 1:105-110(1984). KW PROTEIN; 3D STRUCTURE; THEORY. // ID LEA8501 RA Lesk A.M.; RT "Coordination of sequence data."; RL Nature 314:318-319(1985). KW PROTEIN; NUCLEIC ACID; DATA BANK. // ID LEA8601 RA Lesk A.M.; RT "Three-dimensional structures of proteins: archives, research and RT applications."; RL Protein, Nucleic Acid and Enzyme 29:101-110(1986). KW PROTEIN; 3D STRUCTURE; THEORY; REPRESENTATION. CC In Japanese. // ID LEA8602 RA Lesk A.M.; RT "Protein structure, evolution, and conformational change."; RL Protein, Nucleic Acid and Enzyme 29:123-135(1986). KW PROTEIN; 3D STRUCTURE; THEORY. CC In Japanese. // ID LEA8701 RA Lesk A.M.; RT "The Biocomputing program at EMBL."; RL Trends in Biotechnology 5:317-318(1987). KW PROTEIN; NUCLEIC ACID; DATA BANK; 3D STRUCTURE; THEORY. // ID LEA8502 RA Lesk A.M., Harman K.D.; RT "Computer-generated pictures of proteins."; RL Methods in Enzymology 115:381-390(1985). KW PROTEIN; TERTIARY STRUCTURE; REPRESENTATION. // ID LEA8603 RA Lesk A.M., Levitt M., Chothia C.; RT "Alignment of the amino acid sequences of distantly related proteins RT using variable gap penalties."; RL Protein Engineering 1:77-78(1986). KW PROTEIN; ALIGNMENT. // ID LES8301 RA Levene S., Crothers D.M.; RT "A computer graphics study of sequence-directed bending in DNA."; RL J. Biomol. Struct. Dyn. 1:429-435(1983). KW NUCLEIC ACID. // ID LEJ8601 RA Levin J.M., Robson B., Garnier J.; RT "An algorithm for secondary structure determination in proteins based RT on sequence similarity."; RL FEBS Letters 205:303-308(1986). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID LEM7601 RA Levitt M.; RT "A simplified representation of protein conformations for rapid RT simulation of protein folding."; RL J. Mol. Biol. 104:59-107(1976). KW PROTEIN; 3D STRUCTURE; PREDICTION. // ID LEM7801 RA Levitt M.; RT "Conformational preferences of amino acids in globular proteins."; RL Biochemistry 17:4277-4285(1978). KW PROTEIN; SECONDARY STRUCTURE; 3D STRUCTURE; THEORY. // ID LEM8301 RA Levitt M.; RT "Protein folding by restrained energy minimization and molecular RT dynamics."; RL J. Mol. Biol. 170:723-764(1983). KW PROTEIN; 3D STRUCTURE; PREDICTION. // ID LEM8302 RA Levitt M.; RT "Computer simulation of DNA double-helix dynamics."; RL Cold Spring Harbor Symp. Quant. Biol. 47:251-262(1983). KW NUCLEIC ACID; DNA; SECONDARY STRUCTURE. // ID LEM8303 RA Levitt M.; RT "Molecular dynamics of native proteins: I. Computer simulation of RT trajectories."; RL J. Mol. Biol. 168:595-620(1983). KW PROTEIN; 3D STRUCTURE; PREDICTION. // ID LEM7602 RA Levitt M., Chothia C.; RT "Structural patterns in globular proteins."; RL Nature 261:552-558(1976). KW PROTEIN; 3D STRUCTURE; THEORY. // ID LEM7501 RA Levitt M., Warshel A.; RT "Computer simulation of protein folding."; RL Nature 253:694-698(1975). KW PROTEIN; 3D STRUCTURE; PREDICTION. // ID LER8401 RA Lewin R.; RT "National networks for molecular biologists."; RL Science 223:1379-1380(1984). KW COMPUTING RESOURCE; BIONET. // ID LER8601 RA Lewis R.M.; RT "PROBFIND: a computer program for selecting oligonucleotide probes RT from peptide sequences."; RL Nucleic Acids Res. 14:567-570(1986). KW NUCLEIC ACID; PROTEIN; PROBE SELECTION. // ID LEF8701 RA Lewitter F.I., Rindone W.P.; RT "Computer programs for analyzing DNA and protein sequences."; RL Methods in Enzymology 155:582-593(1987). KW NUCLEIC ACID; PROTEIN; SOFTWARE PACKAGE; REVIEW. // ID LER8901 RA Lewontin R.C.; RT "Inferring the number of evolutionary events from DNA coding sequence RT differences."; RL Mol. Biol. Evol. 6:15-32(1989). KW PHYLOGENY; EVOLUTIONARY DISTANCE. // ID LIY8701 RA Lida Y.; RT "DNA sequences and multivariate statistical analysis. Categorical RT discrimination approach to 5'splice site signals of mRNA precursors RT in higher eukaryotes' genes."; RL CABIOS 3:93-98(1987). KW NUCLEIC ACID; SPLICE JUNCTIONS; STATISTIC. // ID LIS7901 RA Lifson S., Sander C.; RT "Antiparallel and parallel beta-strands differ in amino acid residue RT preferences."; RL Nature 282:109-111(1979). KW PROTEIN; 3D STRUCTURE; THEORY. // ID LID8201 RA Lilley D.M.J.; RT "A simple computer program for calculating, modifying and drawing RT circular restriction maps."; RL Nucleic Acids Res. 10:19-26(1982). KW NUCLEIC ACID; RESTRICTION MAP; PLASMID. // ID LIV7401 RA Lim V.I.; RT "Algorithms for prediction of alpha-helical and beta-structural RT regions in globular proteins."; RL J. Mol. Biol. 88:873-894(1974). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID LIV7801 RA Lim V.I.; RT "Polypeptide chain folding through a highly helical intermediate as a RT general principle of globular protein structure formation."; RL FEBS Letters 89:10-14(1978). KW PROTEIN; 3D STRUCTURE; THEORY. // ID LID8501 RA Lipman D.J., Pearson W.R.; RT "Rapid and sensitive protein similarity searches."; RL Science 227:1435-1441(1985). KW PROTEIN; SIMILARITY SEARCH; C LANGUAGE. // ID LID8502 RA Lipman D.J., Wilbur W.J.; RT "Interaction of silent and replacement changes in eukaryotic coding RT sequences."; RL J. Mol. Evol. 21:161-167(1985). // ID LID8401 RA Lipman D.J., Wilbur W.J., Smith T.F., Waterman M.S.; RT "On the statistical significance of nucleic acid similarities."; RL Nucleic Acids Res. 12:215-226(1984). KW NUCLEIC ACID; STATISTIC. // ID LIA8601 RA Liquori A.M., Ripamonti A., Sadun C., Ottani S., Braga D.; RT "Pattern recognition of sequence similarities in globular proteins by RT Fourier analysis: a novel approach to molecular evolution."; RL J. Mol. Evol. 23:80-87(1986). KW PHYLOGENY; PATTERN. // ID LIJ8401 RA Little J.W., Mount D.W.; RT "Creating new restriction sites by silent changes in coding RT sequences."; RL Gene 32:67-73(1984). KW NUCLEIC ACID; RESTRICTION SITE. // ID LOS8401 RA Lombardi S., Seidell H., Pulford S., Dutton W., Parekh S.; RT "Computer programs in nucleic acid synthesis: synthetic strategy RT development using solid-phase chemical techniques with data storage, RT retrieval and analysis capabilities."; RL Nucleic Acids Res. 12:437-446(1984). // ID LOD8401 RA Lonsdale D.M., Hodge T.P., Stoehr P.J.; RT "A computer program for the management of small cosmid banks."; RL Nucleic Acids Res. 12:429-436(1984). // ID LOW8601 RA Loomis W.F., Gilpin M.E.; RT "Multigene family and vestigial sequences."; RL Proc. Natl. Acad. Sci. USA 83:2143-2147(1986). KW COMPUTER SIMULATION. // ID LOB8801 RA Louis B.G., Ganoza M.C.; RT "Signals determining translational start-site recognition in eukaryotes RT and their role in prediction of genetic reading frames."; RL Mol. Biol. Rep. 13:103-115(1988). KW NUCLEIC ACID; CODING SEQUENCE IDENTIFICATION. // ID LUV8401 RA Luckow V.A., Littlewood R.K., Rownd R.H.; RT "Interactive computer programs for the graphic analysis of nucleotide RT sequence data."; RL Nucleic Acids Res. 12:665-673(1984). KW NUCLEIC ACID. // ID LYA8401 RA Lyall A., Hammond P., Brough D., Glover D.; RT "BIOLOG - a DNA sequence analysis system in PROLOG."; RL Nucleic Acids Res. 12:633-642(1984). KW NUCLEIC ACID; PROLOG. // ID MAC8401 RA Maina C.V., Nolan G.P., Szalay A.A.; RT "Molecular weight determination program."; RL Nucleic Acids Res. 12:695-702(1984). KW PROTEIN. // ID MAJ8101 RA Maizel J.V. Jr., Lenk R.P.; RT "Enhanced graphic matrix analysis of nucleic acid and amino acid RT sequences."; RL Proc. Natl. Acad. Sci. USA 78:7665-7669(1981). KW NUCLEIC ACID; PROTEIN; DOT MATRIX. // ID MAF8801 RA Major F., Feldmann R., Lapalme G.; RT "FUS: a system to simulate conformational changes in biological RT macromolecules."; RL CABIOS 4:445-451(1988). KW PROTEIN; SECONDARY STRUCTURE; TERTIARY STRUCTURE. // ID MAB8401 RA Malthiery B., Bellon B., Giorgi D., Jacq B.; RT "Apple II Pascal computer programs for molecular biologists."; RL Nucleic Acids Res. 12:569-579(1984). KW NUCLEIC ACID; APPLE II; PASCAL. // ID MAP7801 RA Manavalan P., Ponnuswamy P.K.; RT "Hydrophobic character of amino acid residues in globular proteins."; RL Nature 275:673-674(1978). KW PROTEIN; HYDROPHOBICITY; SCALE. // ID MAJ8801 RA Mandler J.; RT "HYSTRUC: hydropathy and secondary structure prediction."; RL CABIOS 4:309-309(1988). KW PROTEIN; HYDROPHOBICITY; SECONDARY STRUCTURE; PREDICTION. // ID MAJ8802 RA Mandler J.; RT "BETRA: a helpful tool for Beckman Microgenie users."; RL CABIOS 4:310-310(1988). // ID MAJ8803 RA Mandler J.; RT "ANTIGEN: protein surface residue prediction."; RL CABIOS 4:493-493(1988). KW PROTEIN; ANTIGENIC DETERMINANT; PREDICTION; HYDROPHOBICITY. // ID MAH8601 RA Marcaud H., Gabarro-Arpa J., Ehrlich R., Reiss C.; RT "An algorithm for studying cooperative transitions in DNA."; RL Nucleic Acids Res. 14:551-558(1986). // ID MAR8601 RA Marck C.; RT "Fast analysis of DNA and protein sequence on Apple IIe: restriction RT sites search, alignment of short sequence and dot matrix analysis."; RL Nucleic Acids Res. 14:583-590(1986). KW NUCLEIC ACID; PROTEIN; RESTRICTION SITE; ALIGNMENT; DOT MATRIX; KW APPLE II. // ID MAC8801 RA Marck C.; RT "'DNA Strider': a 'C' program for the fast analysis of DNA and protein RT sequences on the Apple McIntosh family of computers."; RL Nucleic Acids Res. 16:1829-1835(1988). KW NUCLEIC ACID; PROTEIN; SOFTWARE PACKAGE; APPLE MACINTOSH; C LANGUAGE. // ID MAH8701 RA Margalit H., Spouge J.L., Cornette J.L., Cease K.B., DeLisi C., RA Berzofsky J.A.; RT "Prediction of immunodominant helper T cell antigenic sites from the RT primary sequence."; RL J. Immunol. 138:2213-2229(1987). KW PROTEIN; ANTIGENIC DETERMINANT; PREDICTION; HYDROPHOBICITY. // ID MAE7001 RA Markowitz E.; RT "Estimation and testing goodness-of-fit for some models of codon RT fixation variability."; RL Biochem. Genet. 4:595-601(1970). KW PHYLOGENY. // ID MAP8301 RA Marliere P.; RT "Computer building and folding of fictitious transfer-RNA sequences."; RL Biochimie 65:267-273(1983). KW NUCLEIC ACID; TRNA. // ID MAH8301 RA Martinez H.M.; RT "An efficient method for finding repeats in molecular sequences."; RL Nucleic Acids Res. 11:4629-4634(1983). KW REPEATS. // ID MAH8401 RA Martinez H.M.; RT "An RNA folding rule."; RL Nucleic Acids Res. 12:323-334(1984). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID MAH8801 RA Martinez H.M.; RT "A flexible multiple sequence alignment program."; RL Nucleic Acids Res. 16:1683-1691(1988). KW MULTIPLE ALIGNMENT. // ID MAH8802 RA Martinez H.M.; RT "An RNA secondary structure workbench."; RL Nucleic Acids Res. 16:1789-1798(1988). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID MAC8601 RA Marvel C.C.; RT "A program for the identification of tRNA-like structures in DNA RT sequence data."; RL Nucleic Acids Res. 14:431-435(1986). KW NUCLEIC ACID; TRNA; LOCATION. // ID MAB7501 RA Matthews B.W.; RT "Comparison of the predicted and observed secondary structure of T4 RT phage lysozyme."; RL Biochim. Biophys. Acta 405:442-451(1975). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID MAB8501 RA Matthews B.W., Rossmann M.G.; RT "Comparisons of protein structures"; RL Methods in Enzymology 115:397-420(1985). KW PROTEIN; TERTIARY STRUCTURE; COMPARISON. // ID MAS8901 RA Maulik S.; RT "Protein databases and software on BIONET."; RL Protein Seq. Data Anal. 2:111-114(1989). KW PROTEIN; DATA BANK; COMPUTING RESOURCE; BIONET. // ID MAF7601 RA Maxfield F.R., Scheraga H.A.; RT "Status of empirical methods for the prediction of protein backbone RT topography."; RL Biochemistry 15:5138-5153(1976). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID MAF7901 RA Maxfield F.R., Scheraga H.A.; RT "Improvements in the prediction of protein backbone topography by RT reduction of statistical errors."; RL Biochemistry 18:697-704(1979). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID MCP8801 RA McCaldon P., Argos P.; RT "Oligopeptide biases in protein sequences and their use in predicting RT protein coding regions in nucleotide sequences."; RL Proteins: Structure, Function and Genetics 4:99-122(1988). KW NUCLEIC ACID; CODING SEQUENCE IDENTIFICATION. // ID MCD8401 RA McCormick D.; RT "Big resources for small computers."; RL Biotechnology 2:945-952(1984). KW REVIEW. // ID MCM8501 RA McDonnell M.T., Colwell R.R.; RT "A microcomputer program for the computation of free energy of the RT secondary structure of RNA oligomers by Ninio's rules."; RL J. Microbiological Methods 3:33-42(1985). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID MCM8502 RA McDonnell M.T., Colwell R.R.; RT "Dot-matrix analysis of nucleic acid sequences: an interactive RT microcomputer program."; RL J. Microbiological Methods 3:247-254(1985). KW NUCLEIC ACID; DOT MATRIX. // ID MCA7101 RA McLachlan A.D.; RT "Test for comparing related amino acid sequences. Cytochrome c and RT cytochrome c551."; RL J. Mol. Biol. 61:409-424(1971). KW PROTEIN. // ID MCA7201 RA McLachlan A.D.; RT "Repeating sequences and gene duplication in proteins."; RL J. Mol. Biol. 64:417-437(1972). KW PROTEIN. // ID MCA7701 RA McLachlan A.D.; RT "Analysis of periodic patterns in amino acid sequences: collagen."; RL Biopolymers 16:1271-1297(1977). KW PROTEIN; PATTERN. // ID MCA8501 RA McLachlan A.D., Boswell D.R.; RT "Confidence limits for homology in protein or gene sequences. The RT c-myc oncogene and Adenovirus E1A protein."; RL J. Mol. Biol. 185:39-49(1985). // ID MCA8401 RA McLachlan A.D., Staden R., Boswell D.R.; RT "A method for measuring the non-random bias of a codon usage table."; RL Nucleic Acids Res. 12:9567-9575(1984). // ID MCP7201 RA McLaughlin P.J., Dayhoff M.O.; RT "Evolution of species and proteins: a time scale."; RL (In) Atlas of Protein Sequence and Structure, 5:47-52(1972), Nat. RL Biomed. Res. Found., Washington D.C. // ID MCA8601 RA McMurray A.; RT "DIGICALC: a restriction fragment analysis program."; RL Nucleic Acids Res. 14:529-536(1986). KW NUCLEIC ACID; RESTRICTION FRAGMENT. // ID MEU8801 RA Melcher U.; RT "A readable and space-efficient DNA sequence representation: application RT to caulimoviral DNAs"; RL CABIOS 4:93-96(1988). KW NUCLEIC ACID; SEQUENCE REPRESENTATION. // ID MEL8801 RA Menendez-Arias L., Gomez-Gutierrez J., Garcia-Ferrandez M., RA Garcia-Tejedor A., Moran F.; RT "A BASIC microcomputer program to calculate the secondary structure of RT proteins from the circular dichroism spectrum."; RL CABIOS 4:479-482(1988). KW PROTEIN; CIRCULAR DICHROISM; BASIC. // ID MEG8701 RA Mengeritsky G., Smith T.F.; RT "Recognition of characteristics patterns in sets of functionally RT equivalent DNA sequences."; RL CABIOS 3:223-227(1987). KW NUCLEIC ACID; PATTERN. // ID MEG8901 RA Mengeritsky G., Smith T.F.; RT "New analytical tool for analysis of splice site sequence determinants."; RL CABIOS 5:97-100(1989). KW NUCLEIC ACID; SPLICE JUNCTIONS. // ID MES8401 RA Meyers S., Fiedland P.; RT "Knowledge-based simulation of genetic regulation in bacteriophage RT lambda."; RL Nucleic Acids Res. 12:1-9(1984). KW NUCLEIC ACID; EXPERT SYSTEM. // ID MIA8801 RA Mironov A.A., Alexandrov N.N.; RT "Statistical method for rapid homology search."; RL Nucleic Acids Res. 16:5169-5173(1988). KW NUCLEIC ACID; HOMOLOGY. // ID MIA8701 RA Mironov A.A., Alexandrov N.N., Liunovskaia-Gurova L.V., Kister A.E.; RT "Computer programs for the analysis of nucleotide sequences (MALK)."; RL Molecular Biology (URSS) 21:672-677(1987). KW NUCLEIC ACID. // ID MIS8501 RA Miyazawa S., Jernigen R.L.; RT "Estimation of effective interresidue contact energies from protein RT crystal structures: quai-chemical approximation."; RL Macromolecules 18:534-552(1985). KW PROTEIN; HYDROPHOBICITY; SCALE. // ID MIE8501 RA Mizraji E., Ninio J.; RT "Graphical coding of nucleic acid sequences."; RL Biochimie 67:445-448(1985). KW NUCLEIC ACID; SEQUENCE REPRESENTATION. // ID MOJ8301 RA Modelevsky J.L.; RT "Computer applications in recombinant DNA research."; RL Basic Life Science 25:17-34(1983). KW NUCLEIC ACID. // ID MOJ8401 RA Modelevsky J.L.; RT "Computer applications in applied genetic engineering."; RL Adv. Appl. Microbiol. 30:169-195(1984). KW NUCLEIC ACID. // ID MOJ8801 RA Modelevsky J.L., Akers T.G.; RT "Reiterative RNA folding and occupency rate analysis for mRNA RT modelling."; RL CABIOS 4:161-166(1988). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION; REPRESENTATION. // ID MOJ8802 RA Modelevsky J.L., Akers T.G.; RT "3-D multi-variate data display tool as a protein design aid."; RL CABIOS 4:308-308(1988). KW PROTEIN. // ID MOJ8601 RA Modelevsky J.L., Norris F., Briesinger G.; RT "GENEVIEW and the DNACE data bus: computational tools for analysis, RT display and exchange of genetic information."; RL Nucleic Acids Res. 14:397-403(1986). // ID MOG7701 RA Moore G.W.; RT "Proof of the populous path algorithm for missing mutations in RT parsimony trees."; RL J. Theor. Biol. 66:95-106(1977). KW PHYLOGENY. // ID MOO8701 RA Moore J.F., Carhart R.E., Tibedo S., Engelberg A.; RT "Managing vector data and designing cloning experiments with RT StrateGene."; RL Biotechniques 5:366-373(1987). KW NUCLEIC ACID; RESTRICTION MAP; EXPERT SYSTEM. // ID MOO8801 RA Moore J.F., Engelberg A., Bairoch A.; RT "Using PC/Gene for protein and nucleic acid analysis."; RL Biotechniques 6:566-572(1988). KW NUCLEIC ACID; PROTEIN; SOFTWARE PACKAGE; IBM-PC. // ID MON8701 RA Moote N.J., Chenier P., Mikhail M., Drouin J.; RT "A program for the graphic representation and manipulation of DNA RT sequences."; RL CABIOS 3:189-192(1987). KW NUCLEIC ACID; SEQUENCE REPRESENTATION; RESTRICTION SITE. // ID MOA8601 RA Morffew A.J., Todd S.J.P.; RT "The use of PROLOG as a protein querying language."; RL Computers and Chemistry 10:9-14(1986). KW PROTEIN; PROLOG. // ID MOR8901 RA Mott R.F., Kirkwood T.B.L., Curnow R.N.; RT "A test for the statistical significance of DNA sequence similarities for RT application in databank searches."; RL CABIOS 5:123-131(1989). KW NUCLEIC ACID; STATISTIC. // ID MOU8601 RA Moult J., James M.N.G.; RT "An algorithm for determining the conformation of polypeptide segments RT in proteins by systematic search."; RL Proteins: Structure, Function and Genetics 1:146-163(1986). KW PROTEIN; 3D STRUCTURE; PREDICTION. // ID MOD8401 RA Mount D.W.; RT "Modeling RNA structure."; RL Biotechnology 2:791-795(1984). KW NUCLEIC ACID. // ID MOD8501 RA Mount D.W.; RT "Computer analysis of sequence, structure and function of biological RT macromolecules."; RL Biotechniques 3:102-112(1985). // ID MOD8402 RA Mount D.W., Conrad B.; RT "Microcomputer programs for back translation of protein to DNA RT sequences and analysis of ambiguous DNA sequences."; RL Nucleic Acids Res. 12:819-823(1984). KW NUCLEIC ACID; PROTEIN; TRANSLATION. // ID MOD8403 RA Mount D.W., Conrad B.; RT "Microcomputer programs for graphic analysis of nucleic acid and RT protein sequences."; RL Nucleic Acids Res. 12:811-819(1984). KW NUCLEIC ACID; PROTEIN; SOFTWARE PACKAGE; IBM-PC. // ID MOD8601 RA Mount D.W., Conrad B.; RT "Improved programs for DNA and protein sequence analysis on the IBM RT personal computer and other standard computer systems."; RL Nucleic Acids Res. 14:443-454(1986). KW NUCLEIC ACID; PROTEIN; SOFTWARE PACKAGE; IBM-PC; C LANGUAGE. // ID MRJ8801 RA Mrazek J., Kypr J.; RT "Computer program Jamseq combining statistical and stereochemical RT rules for the prediction of protein secondary structure."; RL CABIOS 4:297-302(1988). KW PROTEIN; SECONDARY STRUCTURE; REPRESENTATION. // ID MUM8401 RA Mulligan M.E., Hawley D.K., Entriken R., McClure W.R.; RT "Escherichia coli promoter sequences predict in vitro RNA polymerase RT selectivity."; RL Nucleic Acids Res. 12:789-800(1984). KW NUCLEIC ACID; PROMOTERS. // ID MUM8601 RA Mulligan M.E., McClure W.R.; RT "Analysis of the occurrence of promoter-sites in DNA."; RL Nucleic Acids Res. 14:109-126(1986). KW NUCLEIC ACID; PROMOTERS. // ID MUM8501 RA Murata M., Richardson J.S., Sussman J.L.; RT "Simultaneous comparison of three protein sequences."; RL Proc. Natl. Acad. Sci. USA 82:3073-3077(1985). KW PROTEIN; MULTIPLE ALIGNMENT. // ID MYE8801 RA Myers E.W., Miller W.; RT "Optimal alignment in linear space."; RL CABIOS 4:11-17(1988). KW ALIGNMENT; ALGORITHM; C LANGUAGE. // ID MYE8901 RA Myers E.W., Miller W.; RT "Approximate marching of regular expressions."; RL Bull. Math. Biol. 51:5-37(1989). KW PATTERN; ALGORITHM. // ID MYE8601 RA Myers E.W., Mount D.W.; RT "Computer program for the IBM personal computer which searches for RT approximate matches to short oligonucleotide sequences in long target RT DNA sequences."; RL Nucleic Acids Res. 14:501-508(1986). KW NUCLEIC ACID; IBM-PC. // ID NAK7701 RA Nagano K.; RT "Triplet information in helix prediction applied to the analysis of RT super-secondary structure."; RL J. Mol. Biol. 109:251-257(1977). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID NAH8601 RA Nakashima H., Nishikawa K., Ooi T.; RT "The folding type of a protein is relevant to the amino acid RT composition."; RL J. Biochem. 99:153-162(1986). KW PROTEIN. // ID NAK8501 RA Nakata K., Kanehisa M.I., DeLisi C.; RT "Prediction of splice junctions in mRNA sequences."; RL Nucleic Acids Res. 13:5327-5340(1985). KW NUCLEIC ACID; SPLICE JUNCTIONS. // ID NAK8801 RA Nakata K., Kanehisa M.I., Maizel J.V. Jr.; RT "Discriminant analysis of promoters regions in Escherichia coli RT sequences."; RL CABIOS 4:367-371(1988). KW NUCLEIC ACID; PROMOTERS. // ID NAM8501 RA Nanard M., Nanard J.; RT "A user-friendly biological workstation."; RL Biochimie 67:429-432(1985). // ID NAS8401 RA Narayana S.V.L., Argos P.; RT "Residue contacts in proteins structures and implications for protein RT folding."; RL Int. J. Pept. Prot. Res. 24:25-39(1984). KW PROTEIN; 3D STRUCTURE; THEORY. // ID NAS8601 RA Naylor S., Findeis A.F., Gibson B.W., Williams D.H.; RT "An approach toward the complete FAB analysis of enzymic digests of RT peptides and proteins."; RL J. Am. Chem. Soc. 108:6359-6363(1986). KW PROTEIN. // ID NES7001 RA Needleman S.B., Wunsch C.D.; RT "A general method applicable to the search for similarities in the RT amino acid sequence of two proteins."; RL J. Mol. Biol. 48:443-453(1970). KW ALIGNMENT. // ID NEM8601 RA Nei M., Gojobori T.; RT "Simple methods for estimating the number of synonymous and RT nonsynonymous nucleotide substitutions."; RL Mol. Biol. Evol. 3:418-426(1986). KW PHYLOGENY; EVOLUTIONARY DISTANCE. // ID NEM8702 RA Nei M.; RT "Molecular Evolutionary Genetics."; RL (In) Columbia University Press, New York, (1987). KW PHYLOGENY; EVOLUTIONARY DISTANCE. // ID NEM7801 RA Nei M., Tateno Y.; RT "Nonrandom amino acid substitution and estimation of the number of RT nucleotide substitutions in evolution."; RL J. Mol. Evol. 11:333-347(1978). KW PHYLOGENY; EVOLUTIONARY DISTANCE. // ID NEM7901 RA Nei M., Tateno Y.; RT "Augmentation algorithm: a reply to Holmquist."; RL J. Mol. Evol. 13:167-171(1979). KW PHYLOGENY. // ID NEM8101 RA Nei M., Tateno Y.; RT "Statistical properties of the Jukes-Holmquist method of estimating RT the number of nucleotide substitutions: reply to Holmquist and RT Conroy's criticism."; RL J. Mol. Evol. 17:182-187(1981). KW PHYLOGENY; EVOLUTIONARY DISTANCE. // ID NEP8601 RA Neumaier P.S.; RT "A program package applicable to the detection of overlaps between RT restriction maps."; RL Nucleic Acids Res. 14:351-362(1986). KW NUCLEIC ACID; RESTRICTION MAP. // ID NIH8701 RA Nicholas H.B. Jr., McClain W.H.; RT "An algorithm for discriminating sequences and its applications to RT yeast transfer RNA."; RL CABIOS 3:177-181(1987). KW NUCLEIC ACID; TRNA. // ID NIM8501 RA Nilsson M.T., Klein G.O.; RT "SEQ-ED: an interactive computer program for editing, analysis and RT storage of long DNA sequences."; RL CABIOS 1:29-34(1985). KW NUCLEIC ACID; SOFTWARE PACKAGE. // ID NIJ7901 RA Ninio J.; RT "Prediction of pairing schemes in RNA molecule-loop contributions and RT energy of wobble and non-wobble pairs."; RL Biochimie 61:1133-1150(1979). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID NIK8301 RA Nishikawa K.; RT "Assessment of secondary-structure prediction of proteins. Comparison RT of computerized Chou-Fasman method with others."; RL Biochim. Biophys. Acta 748:285-299(1983). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID NIK8601 RA Nishikawa K.; RT "Prediction of the secondary structure of proteins: a method of using RT homology to proteins of known structure."; RL Protein, Nucleic Acid and Enzyme 29:79-89(1986). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. CC In Japanese. // ID NIK8302 RA Nishikawa K., Kubota Y., Ooi T.; RT "Classification of proteins into groups based on amino acid RT composition and other characters. I. Angular distribution."; RL J. Biochem. 94:981-995(1983). KW PROTEIN; FUNCTION. // ID NIK8303 RA Nishikawa K., Kubota Y., Ooi T.; RT "Classification of proteins into groups based on amino acid RT composition and other characters. II. Grouping into four types."; RL J. Biochem. 94:997-1007(1983). KW PROTEIN; FUNCTION. // ID NIK8701 RA Nishikawa K., Nakashima H., Kanehisa M., Ooi T.; RT "Detection of weak sequence homology of proteins for tertiary RT structure prediction."; RL Protein Seq. Data Anal. 1:107-116(1987). KW PROTEIN. // ID NIK8201 RA Nishikawa K., Ooi T.; RT "Correlation of the amino acid composition of a protein to its RT structural and biological characters."; RL J. Biochem. 91:1821-1824(1982). KW PROTEIN; FUNCTION. // ID NIK8602 RA Nishikawa K., Ooi T.; RT "Radial locations of amino acid residues in a globular protein: RT correlation with the sequences."; RL J. Biochem. 100:1043-1047(1986). KW PROTEIN. // ID NOG8401 RA Nolan G.P., Maina C.V., Szalay A.A.; RT "Plasmid mapping computer program."; RL Nucleic Acids Res. 12:717-729(1984). KW NUCLEIC ACID; RESTRICTION MAP; PLASMID. // ID NOM810 RA Nomenclature Committee of IUB (NC-IUB) and IUPAC-IUB Joint Commission RA on Biochemical Nomenclature (JCBN).; RT "Newsletter 1981."; RL Eur. J. Biochem. 114:1-4(1981). KW PROTEIN; NOMENCLATURE. // ID NOM8501 RA Nomenclature Committee of IUB (NC-IUB) and IUPAC-IUB Joint Commission RA on Biochemical Nomenclature (JCBN).; RT "Newsletter 1985."; RL Eur. J. Biochem. 146:237-239(1985). KW PROTEIN; NOMENCLATURE. // ID NOP8501 RA North P.A., Malcolm A.D.B.; RT "Prediction of restriction sites from protein sequences: a computer RT program."; RL Biochem. Soc. Trans. 13:789-791(1985). KW PROTEIN; NUCLEIC ACID; RESTRICTION SITE. // ID NOJ8201 RA Novotny J.; RT "Matrix program to analyze primary structure homologies."; RL Nucleic Acids Res. 10:127-131(1982). KW NUCLEIC ACID; MATRIX. // ID NOJ8401 RA Novotny J., Auffray C.; RT "A program for prediction of protein secondary structure from RT nucleotide sequence data: application to histocompatibility antigens."; RL Nucleic Acids Res. 12:243-255(1984). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID NOJ8402 RA Novotny J., Bruccoleri R.E., Karplus M.; RT "An analysis of incorrectly folded models - implications for structure RT predictions."; RL J. Mol. Biol. 177:787-818(1984). KW PROTEIN; 3D STRUCTURE; THEORY. // ID NOY7101 RA Nozaki Y., Tanford C.; RT "The solubility of amino acids and two glycine peptides in aqueous RT ethanol and dioxane solutions: establishment of a hydrophobicity RT scale."; RL J. Biol. Chem. 246:2211-2217(1971). KW PROTEIN; HYDROPHOBICITY; SCALE. // ID NUR8001 RA Nussinov R.; RT "Some rules for ordering nucleotides in DNA."; RL Nucleic Acids Res. 8:4545-4562(1980). KW NUCLEIC ACID. // ID NUR8102 RA Nussinov R.; RT "Nearest neighbor nucleotide patterns. Structural and biological RT implications."; RL J. Biol. Chem. 256:8458-8462(1981). KW NUCLEIC ACID. // ID NUR8301 RA Nussinov R.; RT "An efficient code searching for sequence homology and DNA duplication."; RL J. Theor. Biol. 100:319-328(1983). KW NUCLEIC ACID; HOMOLOGY. // ID NUR8302 RA Nussinov R.; RT "Efficient algorithms for searching for exact repetition of nucleotide RT sequences."; RL J. Mol. Evol. 19:283-285(1983). KW NUCLEIC ACID; ALGORITHM. // ID NUR8701 RA Nussinov R.; RT "Theoretical molecular biology: prospectives and perspectives."; RL J. Theor. Biol. 125:219-235(1987). KW REVIEW. // ID NUR8002 RA Nussinov R., Jacobson A.B.; RT "Fast algorithm for predicting the secondary structure of single- RT stranded RNA."; RL Proc. Natl. Acad. Sci. USA 77:6309-6313(1980). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION; ALGORITHM. // ID NUR7801 RA Nussinov R., Pieczenik G., Griggs J.R., Kleitman D.J.; RT "Algorithm for loop matchings."; RL SIAM J. Appl. Math. 35:68-82(1978). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION; ALGORITHM. // ID NUR8101 RA Nussinov R., Tinoco I. Jr.; RT "Sequential folding of a messenger RNA molecule."; RL J. Mol. Biol. 151:519-533(1981). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID NUR8201 RA Nussinov R., Tinoco I. Jr., Jacobson A.B.; RT "Small changes in free energy assignments for unpaired bases do not RT affect predicted secondary structures in single stranded RNA."; RL Nucleic Acids Res. 10:341-349(1982). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID NUR8202 RA Nussinov R., Tinoco I. Jr., Jacobson A.B.; RT "Secondary structure model for the complete simian virus 40 late RT precursor mRNA."; RL Nucleic Acids Res. 10:351-363(1982). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID OHS8801 RA Ohno S.; RT "Universal rule for coding sequence construction: TA/CG deficiency RT -TG/CT excess."; RL Proc. Natl. Acad. Sci. USA 85:9630-9634(1988). KW NUCLEIC ACID; CODING SEQUENCE IDENTIFICATION. // ID OHY8701 RA Ohshima Y., Gotoh Y.; RT "Signals for the selection of a splice site in pre-mRNA. Computer RT analysis of splice junctions sequences and like sequences."; RL J. Mol. Biol. 197:247-259(1987). KW NUCLEIC ACID; SPLICE JUNCTIONS. // ID OLJ8901 RA Oliver J.L., Marin A., Medina J.; RT "SDSE: A software package to simulate the evolution of a pair of DNA RT sequences."; RL CABIOS 5:47-50(1989). KW PHYLOGENY; EVOLUTIONARY DISTANCE; FORTRAN; IBM PC. // ID OLW8801 RA Olson W.K., Srinivasan A.R.; RT "The translation of DNA primary base sequence in three-dimensional RT structure."; RL CABIOS 4:133-142(1988). KW NUCLEIC ACID; DNA; 3D STRUCTURE; PREDICTION. // ID OOT8601 RA Ooi T., Takahashi S.; RT "Correlation between primary structure and tertiary structure of RT proteins."; RL Protein, Nucleic Acid and Enzyme 29:69-78(1986). KW PROTEIN; 3D STRUCTURE; PREDICTION. CC In Japanese. // ID OOT8101 RA Ooi T., Takanami M.; RT "A computer method for construction of secondary structure from RT polynucleotide sequence. Possible structure of the bacterial RT replication origin."; RL Biochim. Biophys. Acta 655:221-229(1981). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID ORB8401 RA Orcutt B.C., Barker W.C.; RT "Searching the protein sequence database."; RL Bull. Math. Biol. 46:545-552(1984). KW PROTEIN; DATA BANK. // ID ORB8301 RA Orcutt B.C., George D.G., Dayhoff M.O.; RT "Protein and nucleic acid sequence database systems."; RL Ann. Rev. Biophys. Bioeng. 12:419-441(1983). KW NUCLEIC ACID; PROTEIN; DATA BANK. // ID ORB8201 RA Orcutt B.C., George D.G., Fredrickson J.A., Dayhoff M.O.; RT "Nucleic acid sequence database computer system."; RL Nucleic Acids Res. 10:157-174(1982). KW NUCLEIC ACID; DATA BANK. // ID OSG8201 RA Osterburg G., Glatting K.H., Sommer R.; RT "Computer programs for the analysis and the management of DNA RT sequences."; RL Nucleic Acids Res. 10:207-216(1982). KW NUCLEIC ACID. // ID OSG8301 RA Osterburg G., Glatting K.H., Buchert J., Wolters J.; RT "A fast method for arranging DNA sequence fragments."; RL Computer Programs in Biomedicine 16:61-70(1983). KW NUCLEIC ACID. // ID OSG8101 RA Osterburg G., Sommer R.; RT "Computer support of DNA sequence analysis."; RL Computer Programs in Biomedicine 13:101-109(1981). KW NUCLEIC ACID. // ID OWJ8801 RA Owens J., Chatterjee D., Nussinov R., Konopka A.K., Maizel J.V. Jr.; RT "A fixed-point alignment technique for detection of recurrent and RT common sequence motifs associated with biological features."; RL CABIOS 4:73-77(1988). KW PATTERN; MULTIPLE ALIGNMENT. // ID PAC8701 RA Pabo C.O.; RT "New generation databases for molecular biology."; RL Nature 327:467-467(1987). KW NUCLEIC ACID; PROTEIN; DATA BANK. // ID PAC8601 RA Pabo C.O., Suchanek E.G.; RT "Computer-aided model-building strategies for protein design."; RL Biochemistry 25:5987-5991(1986). KW PROTEIN. // ID PAE7701 RA Padlan E.A.; RT "Structural implications of sequence variability in immunoglobulins."; RL Proc. Natl. Acad. Sci. USA 74:2551-2555(1977). KW PROTEIN. // ID PAV8401 RA Paetkau V.; RT "A new rule for analyzing homologous coding sequences in DNA."; RL Nucleic Acids Res. 12:159-173(1984). KW NUCLEIC ACID. // ID PAJ8201 RA Palau J., Argos P.; RT "Protein secondary structure."; RL Int. J. Pept. Prot. Res. 19:394-401(1982). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID PAM8601 RA Pandit M.W., Kolaskar A.S., Thanaraj T.A., Bhargava P.M.; RT "Analysis of repeating oligonucleotide sequences in ribonucleic acids RT using an Apple II microcomputer."; RL CABIOS 2:189-194(1986). KW NUCLEIC ACID; REPEATS; APPLE II. // ID PAG8501 RA Paolella G.; RT "A fast DNA sequence handling program for Apple II computer in BASIC RT and 6502 assembler."; RL CABIOS 1:43-49(1985). KW NUCLEIC ACID; APPLE II; BASIC. // ID PAG8502 RA Paolella G., Russo T.; RT "A microcomputer program for the identification of tRNA genes."; RL CABIOS 1:149-151(1985). KW NUCLEIC ACID; TRNA; LOCATION. // ID PAC8401 RA Papanicolaou C., Gouy M., Ninio J.; RT "An energy model that predicts the correct folding of both the tRNA RT and the 5S RNA molecules."; RL Nucleic Acids Res. 12:31-44(1984). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID PAJ8601 RA Parker J.M.R., Guo D., Hodges R.S.; RT "New hydrophilicity scale derived from high-performance liquid RT chromatography peptide retention data: correlation of predicted RT surface residues with antigenicity and X-ray-derived accessible RT sites."; RL Biochemistry 25:5425-5431(1986). KW PROTEIN; HYDROPHOBICITY; SCALE. // ID PAA8601 RA Parrilla A., Domenech A., Querol E.; RT "A Pascal microcomputer program for prediction of protein secondary RT structure and hydropathic segments."; RL CABIOS 2:211-215(1986). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION; PASCAL. // ID PAS8701 RA Pascarella S., Bossa F.; RT "PROTEUS: a suite of programs for prediction of structural features RT of proteins using an Apple IIe."; RL CABIOS 3:325-331(1987). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION; SOFTWARE PACKAGE; APPLE II. // ID PAS8901 RA Pascarella S., Bossa F.; RT "CLEAVAGE: a microcomputer program for predicting signal sequence RT cleavage sites."; RL CABIOS 5:53-54(1989). KW PROTEIN; SIGNAL SEQUENCE; APPLE II. // ID PAR8201 RA Patarca R., Dorta B., Ramirez J.L.; RT "Creation of a database for sequences of ribosomal nucleic acids and RT detection of conserved restriction endonucleases sites through RT computerized processing."; RL Nucleic Acids Res. 10:175-182(1982). KW NUCLEIC ACID; RRNA; DATA BANK. // ID PAL8701 RA Patthy L.; RT "Detecting homology of distantly related proteins with consensus sequences. "; RL J. Mol. Biol. 198:567-577(1987). KW PROTEIN; HOMOLOGY. // ID PAD8501 RA Pauletti D., Simmonds R., Dreesman G.R., Kennedy R.C.; RT "Application of a modified computer algorithm in determining potential RT antigenic determinants associated with the AIDS virus glycoprotein."; RL Analytical Biochem. 151:540-546(1985). KW PROTEIN; ANTIGENIC DETERMINANT; PREDICTION. // ID PED7501 RA Peacock D., Boulter D.; RT "Use of amino acid sequence in phylogeny and evaluation of methods RT using computer simulations."; RL J. Mol. Biol. 95:513-527(1975). KW PHYLOGENY. // ID PEW8201 RA Pearson W.R.; RT "Automatic construction of restriction site maps."; RL Nucleic Acids Res. 10:217-227(1982). KW NUCLEIC ACID; RESTRICTION MAP. // ID PEW8801 RA Pearson W.R., Lipman D.J.; RT "Improved tools for biological sequence comparison."; RL Proc. Natl. Acad. Sci. USA 85:2444-2448(1988). KW PROTEIN; NUCLEIC ACID; HOMOLOGY; SIMILARITY SEARCH; ALIGNMENT. // ID PEH8401 RA Peltola H., Soderlund H., Ukkonen E.; RT "SEQAID: A DNA sequence assembling program based on a mathematical RT model."; RL Nucleic Acids Res. 12:307-321(1984). KW NUCLEIC ACID. // ID PEH8601 RA Peltola H., Soderlund H., Ukkonen E.; RT "Algorithms for the search of amino acid patterns in nucleic acid RT sequences."; RL Nucleic Acids Res. 14:99-107(1986). KW NUCLEIC ACID; PATTERN. // ID PED8601 RA Penny D., Hendy M.D.; RT "Estimating the reliability of evolutionary trees."; RL Mol. Biol. Evol. 3:403-417(1986). KW PHYLOGENY. // ID PED8701 RA Penny D., Hendy M.D.; RT "Turbo Tree: a fast algorithm for minimal trees."; RL CABIOS 3:183-187(1987). KW PHYLOGENY. // ID PED8001 RA Penny D., Hendy M.D., Foulds L.R.; RT "Techniques for the verification of minimal phylogenetic trees RT illustrated with ten mammalian haemoglobin sequences."; RL Biochem. J. 187:65-74(1980). KW PHYLOGENY. // ID PEW8801 RA Pericolas W.L., Wang Y., Thomas G.A.; RT "Some rules for predicting the base-sequence dependence of DNA RT conformation."; RL Proc. Natl. Acad. Sci. USA 85:2579-2583(1988). KW NUCLEIC ACID; DNA; SECONDARY STRUCTURE; THEORY. // ID PEG8801 RA Pesole G., Attimonelli M., Liuni S.; RT "A backtranslation method based on codon usage strategy."; RL Nucleic Acids Res. 16:1715-1728(1988). KW NUCLEIC ACID; PROTEIN; TRANSLATION; PROBE SELECTION; FORTRAN; VAX. // ID PEP8501 RA Petrelli P.; RT "An algorithm for reconstructing protein sequences."; RL Int. J. Pept. Prot. Res. 25:85-88(1985). KW PROTEIN. // ID PEP8801 RA Petrelli P.; RT "PROSOFT: a general purpose software in protein chemistry."; RL CABIOS 4:265-270(1988). KW PROTEIN; SOFTWARE PACKAGE; APPLE II. // ID PFF8801 RA Pfeiffer F., Gilbert W.A.; RT "VecBase: a cloning vector sequence data base."; RL Protein Seq. Data Anal. 1:269-280(1988). KW NUCLEIC ACID; DATA BANK. // ID PHL8801 RA Philipson L.; RT "The DNA data libraries."; RL Nature 332:676-676(1988). KW NUCLEIC ACID; DATA BANK. // ID PIC8401 RA Pickover C.A.; RT "Computer-drawn faces characterizing nucleic acid sequences."; RL J. Mol. Graphics 2:107-110(1984). KW NUCLEIC ACID; SEQUENCE REPRESENTATION. // ID PIG8401 RA Pierno G., Barni N., Candurro M., Cipollaro M., Franze A., Juliano L., RA Macchiato M.F., Mastrocinque G., Moscatelli C., Scarloto V., RA Tramontano A., Cascino A.; RT "Computer programs for the characterization of protein coding genes."; RL Nucleic Acids Res. 12:281-285(1984). KW NUCLEIC ACID; SOFTWARE PACKAGE; UNIVAC. // ID PIJ7501 RA Pipas J.M., McMahon J.E.; RT "Method for predicting RNA secondary structure."; RL Proc. Natl. Acad. Sci. USA 72:2017-2021(1975). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID PLE8301 RA Platt E., Robson B.; RT "Calculation of biomolecular conformation."; RL (In) Computing in biological sciences, Grisow, Barret, Eds., pp91-131, RL Elsevier, North Holland, (1983). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID POG8401 RA Polner G., Dorgai L., Orosz L.; RT "PMAP, PMAPS: DNA physical map constructing programs."; RL Nucleic Acids Res. 12:227-236(1984). KW NUCLEIC ACID; RESTRICTION MAP. // ID POJ8701 RA Ponder J.W., Richards F.M.; RT "Tertiary templates for proteins: use of packing criteria in the RT enumeration of allowed sequences for different structural classes."; RL J. Mol. Biol. 193:775-791(1987). KW PROTEIN; 3D STRUCTURE; THEORY. // ID POS8801 RA Pongor S.; RT "Novel databases for molecular biology."; RL Nature 332:24-24(1988). KW DATA BANK. // ID POS8501 RA Pongor S., Guttieri M.J., Cohen L.M., Szalay A.A.; RT "Microcomputer programs for prediction and comparative evaluation of RT protein secondary structure from nucleotide sequence data: application RT to ribulose-1,5-bisphosphate carboxylase sequences."; RL DNA 4:319-326(1985). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID POS8502 RA Pongor S., Szalay A.A.; RT "Prediction of homology and divergence in the secondary structure of RT polypeptides."; RL Proc. Natl. Acad. Sci. USA 82:366-370(1985). KW PROTEIN; SECONDARY STRUCTURE. // ID POP8001 RA Ponnuswamy P.K., Prabhakaran M., Manavalan P.; RT "Hydrophobic packing and spatial arrangement of amino acid residues in RT globular proteins."; RL Biochim. Biophys. Acta 623:301-316(1980). KW PROTEIN. // ID POA8801 RA Popowicz A.M., Dash P.F.; RT "SIGSEQ: a computer program for predicting signal sequence cleavage RT sites."; RL CABIOS 4:405-406(1988). KW PROTEIN; SIGNAL SEQUENCE. // ID PRE7801 RA Prager E.M., Wilson A.C.; RT "Construction of phylogenetic trees for proteins and nucleic acids: RT empirical evaluation of alternative matrix methods."; RL J. Mol. Evol. 11:129-142(1978). KW PHYLOGENY. // ID PRS8801 RA Presnell S.R., Benner S.A.; RT "The design of synthetic genes."; RL Nucleic Acids Res. 16:1693-1702(1988). KW NUCLEIC ACID; PROTEIN; SOFTWARE PACKAGE; LISP; VAX; EXPERT SYSTEM. // ID PRL8901 RA Presta L.G.; RT "Protein structure analysis and development of databases."; RL Protein Engineering 2:395-397(1989). KW PROTEIN; TERTIARY STRUCTURE; DATA BANK. // ID PRL8801 RA Presta L.G., Rose D.G.; RT "Helix signals in proteins."; RL Science 240:1632-1641(1988). KW PROTEIN; TERTIARY STRUCTURE; THEORY. // ID PRO8801 RA Protein Engineering Club Database Group.; RT "A protein sequence/structure database."; RL Nature 335:745-746(1988). KW PROTEIN; DATA BANK; TERTIARY STRUCTURE. // ID PTO8101 RA Ptitsyn O.B.; RT "Protein folding: general physical model."; RL FEBS Letters 131:197-202(1981). KW PROTEIN; 3D STRUCTURE; THEORY. // ID PTO8301 RA Ptitsyn O.B., Finkelstein A.V.; RT "Theory of protein secondary structure and algorithm of its RT prediction."; RL Biopolymers 22:15-25(1983). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID PUJ8801 RA Pustell J.M.; RT "Interactive molecular biology computing."; RL Nucleic Acids Res. 16:1813-1820(1988). KW NUCLEIC ACID; PROTEIN; SOFTWARE PACKAGE. // ID PUJ8201 RA Pustell J.M., Kafatos F.C.; RT "A convenient and adaptable package of DNA sequence analysis program RT for microcomputers."; RL Nucleic Acids Res. 10:51-59(1982). KW NUCLEIC ACID; SOFTWARE PACKAGE. // ID PUJ8202 RA Pustell J.M., Kafatos F.C.; RT "A high speed, high capacity homology matrix: zooming through SV40 and RT Polyoma."; RL Nucleic Acids Res. 10:4765-4782(1982). KW NUCLEIC ACID; DOT MATRIX. // ID PUJ8401 RA Pustell J.M., Kafatos F.C.; RT "A convenient and adaptable package of computer programs for DNA and RT protein sequence management, analysis and homology determination."; RL Nucleic Acids Res. 12:643-656(1984). KW NUCLEIC ACID; SOFTWARE PACKAGE. // ID PUJ8601 RA Pustell J.M., Kafatos F.C.; RT "A convenient and adaptable microcomputer environment for DNA and RT protein sequence manipulation and analysis."; RL Nucleic Acids Res. 14:479-488(1986). KW NUCLEIC ACID; SOFTWARE PACKAGE. // ID QIN8801 RA Qian N., Sejnowski T.J.; RT "Predicting the secondary structure of globular proteins using neural RT network models."; RL J. Mol. Biol. 202:865-884(1988). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION; ARTIFICAL INTELLIGENCE. // ID QUC8001 RA Queen C.L., Korn L.J.; RT "Computer analysis of nucleic acids and proteins."; RL Methods in Enzymology 65:595-609(1980). KW NUCLEIC ACID; PROTEIN; REVIEW. // ID QUC8401 RA Queen C.L., Korn L.J.; RT "A comprehensive sequence analysis program for the IBM personal RT computer."; RL Nucleic Acids Res. 12:581-599(1984). KW NUCLEIC ACID; SOFTWARE PACKAGE; IBM-PC. // ID QUC8201 RA Queen C.L., Wegman M.N., Korn L.J.; RT "Improvements to a program for DNA analysis: a procedure to find RT homologies among many sequences."; RL Nucleic Acids Res. 10:449-456(1982). KW NUCLEIC ACID; HOMOLOGY. // ID QUG8401 RA Quigley G.J., Gehrke L., Roth D.A., Auron P.E.; RT "Computer-aided nucleic acid secondary structure modeling RT incorporating enzymatic digestion data."; RL Nucleic Acids Res. 12:347-366(1984). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID QUJ8501 RA Quinqueton J. RT "OURCIN : a tool to build expert systems."; RL Biochimie 67:485-492(1985). KW EXPERT SYSTEM. // ID QUJ8502 RA Quinqueton J., Moreau J.; RT "Application of learning techniques to splicing site recognition."; RL Biochimie 67:541-547(1985). KW NUCLEIC ACID; SPLICE JUNCTIONS; EXPERT SYSTEM. // ID RAS8801 RA Rackowsky S., Goldstein D.A.; RT "Protein comparison and classification: a differential geometrical RT approach."; RL Proc. Natl. Acad. Sci. USA 85:777-781(1988). KW PROTEIN; TERTIARY STRUCTURE; COMPARISON. // ID RAW8701 RA Ralph W.W., Webster T., Smith T.F.; RT "A modified Chou and Fasman protein structure algorithm."; RL CABIOS 3:211-216(1987). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID RAJ8701 RA Rao J.K.M.; RT "New scoring matrix for amino acid residue exchanges based on residue RT characteristic physical parameters."; RL Int. J. Pept. Prot. Res. 29:276-281(1987). KW PROTEIN. // ID RAJ8601 RA Rao J.K.M., Argos P.; RT "A conformational preference parameter to predict helices in integral RT membrane proteins."; RL Biochim. Biophys. Acta 869:197-214(1986). KW PROTEIN; TRANSMEMBRANE REGION. // ID RAR8401 RA Raupach R.E.; RT "Computer programs used to aid in the selection of DNA hybridization RT probes."; RL Nucleic Acids Res. 12:833-836(1984). KW NUCLEIC ACID; PROTEIN; PROBE SELECTION. // ID RAN8301 RA Rawling N., Ashman K., Wittmann-Liebold B.; RT "Computerized version of Chou and Fasman protein secondary structure RT predictive method."; RL Int. J. Pept. Prot. Res. 22:515-524(1983). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID RAC8801 RA Rawlings C.J.; RT "Designing databases for molecular biology."; RL Nature 334:477-477(1988). KW DATA BANK. // ID RAC8501 RA Rawlings C.J., Taylor W.R., Nyakairu J., Fox J., Sternberg M.J.E.; RT "Reasoning about protein topology using the logic programming language RT PROLOG."; RL J. Mol. Graphics 3:151-157(1985). KW PROLOG; EXPERT SYSTEM. // ID RER8901 RA Rechid R., Vingron M., Argos P.; RT "A new interactive protein sequence alignment program and comparison of RT its results with widely used algorithms."; RL CABIOS 5:107-113(1989). KW PROTEIN; ALIGNMENT; FORTRAN; C LANGUAGE; VAX; SUN. // ID REJ8501 RA Reich J.G., Drabsch H., Daumler A.; RT "On the statistical assessment of similarities in DNA sequences."; RL Nucleic Acids Res. 13:5529-5543(1985). KW NUCLEIC ACID; STATISTIC. // ID REJ8701 RA Reich J.G., Meiske W.; RT "A simple statistical significance test of window scores in large dot RT matrices obtained from protein or nucleic acid sequences."; RL CABIOS 3:25-30(1987). KW NUCLEIC ACID; PROTEIN; DOT MATRIX; STATISTIC. // ID RET7301 RA Reichert T.A., Cohen D.N., Wong A.K.C.; RT "An application of information theory to genetic mutations and RT matching of polypeptide sequences."; RL J. Theor. Biol. 42:245-261(1973). KW PROTEIN. // ID REA8401 RA Reisner A.H., Bucholtz C.A.; RT "Utilization of sequence libraries on a 16-bit mini computer with RT particular reference to high speed searching."; RL Nucleic Acids Res. 12:409-416(1984). // ID REA8601 RA Reisner A.H., Bucholtz C.A.; RT "The MTX package of computer programmes for the comparison of RT sequences of nucleotides and amino acid residues."; RL Nucleic Acids Res. 14:233-238(1986). KW NUCLEIC ACID; PROTEIN; SOFTWARE PACKAGE; FORTRAN; VAX. // ID REA8701 RA Reisner A.H., Bucholtz C.A.; RT "Two-dimensional abstract representations (signatures) of proteins."; RL CABIOS 3:171-175(1987). KW PROTEIN; REPRESENTATION. // ID REA8801 RA Reisner A.H., Bucholtz C.A.; RT "The use of various properties of amino acids in color and monochrome RT dot-matrix analyses for protein homologies."; RL CABIOS 4:395-402(1988). KW PROTEIN; DOT MATRIX. // ID REA8201 RA Reisner A.H., Westwood N.H.; RT "Assessment of similarities of pairs and groups of proteins using RT transformed amino acid-residue data."; RL J. Mol. Evol. 18:240-250(1982). KW PROTEIN. // ID RIJ8101 RA Richardson J.S.; RT "The anatomy and taxonomy of protein structure."; RL Adv. Prot. Chem. 34:167-339(1981). KW PROTEIN. // ID RIJ8501 RA Richardson J.S.; RT "Describing patterns of protein tertiary structure."; RL Methods in Enzymology 115:341-358(1985). KW PROTEIN; TERTIARY STRUCTURE. // ID RIJ8502 RA Richardson J.S.; RT "Schematic drawing of protein structures."; RL Methods in Enzymology 115:359-380(1985). KW PROTEIN; TERTIARY STRUCTURE; SECONDARY STRUCTURE; REPRESENTATION. // ID RIJ8801 RA Richardson J.S., Richardson D.C.; RT "Amino acid preference for specific locations at the end of alpha- RT helices."; RL Science 240:1648-1653(1988). KW PROTEIN; SECONDARY STRUCTURE. // ID RIW8601 RA Rindone W.P.; RT "PROPHET, A national computing resource for life science research."; RL Nucleic Acids Res. 14:21-24(1986). KW COMPUTING RESOURCE. // ID RIL8801 RA Risler J.L., Delorme M.O., Delacroix H., Henaut A.; RT "Amino acid substitutions in structurally related proteins. A pattern RT recognition approach."; RL J. Mol. Biol. 204:1019-1029(1988). KW PROTEIN; ALIGNMENT; COMPARISON MATRIX. // ID ROL8901 RA Roberts L.; RT "New chip may speed genome analysis."; RL Science 244:655-656(1989). KW HARDWARE; PATTERN. // ID ROB7401 RA Robson B.; RT "Analysis of the code relating sequence to conformation in globular RT proteins - theory and application of expected information."; RL Biochem. J. 141:853-867(1974). // ID ROB8301 RA Robson B., Douglas G.M., Garnier J.; RT "A simple method and BASIC program for secondary structure prediction RT on a microcomputer."; RL (In) Computing in biological sciences, Grisow, Barret, Eds., pp132-142, RL Elsevier, North Holland, (1983). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION; BASIC. // ID ROB7901 RA Robson B., Osguthorpe D.J.; RT "Refined models for computer simulation of protein folding."; RL J. Mol. Biol. 132:19-51(1979). KW PROTEIN; 3D STRUCTURE; PREDICTION. // ID ROB8501 RA Robson B., Platt E., Finn P.W., Millard P., Gibrat J.-F., Garnier J.; RT "Prediction of the conformation and antigenic determinants of the RT V-sis viral oncogene product homologous with human platelet-derived RT growth factor."; RL Int. J. Pept. Prot. Res. 25:1-8(1985). KW PROTEIN; ANTIGENIC DETERMINANT; PREDICTION. // ID ROF8201 RA Rodier F., Gabarro-Arpa J., Ehrlich R., Reiss C.; RT "Key for protein coding sequence identification: computer analysis of RT codon strategy."; RL Nucleic Acids Res. 10:391-402(1982). KW NUCLEIC ACID; CODING SEQUENCE IDENTIFICATION. // ID ROF8501 RA Rodier F., Sallantin J.; RT "Localization of the initiation of translation in messenger RNAs of RT prokaryotes by learning techniques."; RL Biochimie 67:533-539(1985). KW NUCLEIC ACID. // ID ROS8601 RA Rogers S., Wells R., Rechsteiner M.; RT "Amino acid sequences common to rapidly degraded proteins: the PEST RT hypothesis."; RL Science 234:364-368(1986). KW PROTEIN. // ID ROK8801 RA Rohde K.; RT "A multiple alignment routine for proteins: use, limits and experiences."; RL (In) Abstracts of: Application of data bases and microcomputers in RL molecular biology, pp.47-47, Jena (1988). KW PROTEIN; MULTIPLE ALIGNMENT. // ID ROI8001 RA Roizes G., Pelaquier E.; RT "A method for detecting the coding DNA for a protein of known sequence RT in a collection of chimeric plasmids constructed with cDNAs."; RL Nucleic Acids Res. 8:351-360(1980). KW NUCLEIC ACID. // ID ROA7901 RA Romero-Herrera A.E., Lieska N., Goodman M., Simmons E.L.; RT "The use of amino acid sequence analysis in assessing evolution."; RL Biochimie 61:767-779(1979). KW PHYLOGENY. // ID ROJ8401 RA Rood J.I., Gawthorne J.M.; RT "Apple software for analysis of the size of restriction fragments."; RL Nucleic Acids Res. 12:689-694(1984). KW NUCLEIC ACID; RESTRICTION FRAGMENT; APPLE II. // ID ROD8801 RA Roode D., Liebschutz R., Maulik S., Friedmann T., Benton D., RA Kristofferson D.; RT "New developments at BIONET."; RL Nucleic Acids Res. 16:1857-1859(1988). KW COMPUTING RESOURCE; BIONET. // ID ROM8801 RA Rooman M.J., Wodak S.; RT "Identification of predictive sequence motifs limited by protein RT structure data base size."; RL Nature 335:45-49(1988). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION; PATTERN. // ID ROG7801 RA Rose G.D.; RT "Prediction of chain turns in globular proteins on a hydrophobic RT basis."; RL Nature 272:586-590(1978). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID ROG8501 RA Rose G.D., Geselowitz A.R., Lesser G.J., Lee R.H., Zehfus M.H.; RT "Hydrophobicity of amino acid residues in globular proteins."; RL Science 229:834-838(1985). KW PROTEIN. // ID ROG8502 RA Rose G.D., Gierasch L.M., Smith J.A.; RT "Turns in peptides and proteins."; RL Adv. Prot. Chem. 37:1-109(1985). KW PROTEIN; SECONDARY STRUCTURE; THEORY. // ID ROG8001 RA Rose G.D., Roy S.; RT "Hydrophobic basis of packing in globular proteins."; RL Proc. Natl. Acad. Sci. USA 77:4643-4647(1980). KW PROTEIN. // ID ROG7601 RA Rose G.D., Winter R.H., Wetlaufer D.B.; RT "A testable model for protein folding."; RL FEBS Letters 63:10-16(1976). KW PROTEIN; 3D STRUCTURE; THEORY. // ID ROA8801 RA Ross A.M., Golub E.E.; RT "A computer graphics program system for protein structure RT representation."; RL Nucleic Acids Res. 16:1801-1812(1988). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION; REPRESENTATION; IBM-PC. // ID ROM7601 RA Rossmann M.G., Argos P.; RT "Exploring structural homology of proteins."; RL J. Mol. Biol. 105:75-95(1976). KW PROTEIN. // ID ROM8001 RA Rossmann M.G., Argos P.; RT "Three-dimensional coordinates from stereo diagrams of molecular RT structures."; RL Acta Crystallogr. 36:819-823(1980). KW PROTEIN; 3D STRUCTURE; REPRESENTATION. // ID ROM8101 RA Rossmann M.G., Argos P.; RT "Protein folding."; RL Ann. Rev. Biochem. 50:497-532(1981). KW PROTEIN; 3D STRUCTURE; THEORY. // ID ROW8501 RA Rowe G.W.; RT "A three-dimensional representation for base composition of protein- RT coding DNA sequences."; RL J. Theor. Biol. 112:433-444(1985). KW NUCLEIC ACID; SEQUENCE REPRESENTATION. // ID ROR8501 RA Rowlett R.; RT "A low cost system for the graphical display of space-filling models RT of proteins."; RL Computers and Chemistry 9:301-315(1985). KW PROTEIN; 3D STRUCTURE; REPRESENTATION. // ID ROF8801 RA Rozkok F., Beranek P.; RT "Implementation of EMBL, SWISS-PROT and PIR data bases on SM 52/12 SMEP RT minicomputer."; RL (In) Abstracts of: Application of data bases and microcomputers in RL molecular biology, pp.40-40, Jena (1988). KW NUCLEIC ACID; PROTEIN; DATA BANK. // ID RUG8401 RA Russell G.C.; RT "DNA SIZE - a program to calculate the sizes of DNA fragments in RT agarose gels from the mobility of standard fragments."; RL Binary 3:31-32(1984). KW NUCLEIC ACID. // ID RUP8401 RA Russell P.J., Crandall R.E., Feinbaum R.; RT "GELYSIS: Pascal-implemented analysis of one-dimensional RT electrophoresis gels."; RL Nucleic Acids Res. 12:493-498(1984). KW PASCAL. // ID SAM7101 RA Sackin M.J.; RT "Crossassociation: a method of comparing protein sequences."; RL Biochem. Genet. 5:287-313(1971). KW PROTEIN. // ID SAJ8301 RA Sadler J.R., Waterman M.S., Smith T.F.; RT "Regulatory pattern identification in nucleic acid sequences."; RL Nucleic Acids Res. 11:2221-2231(183). KW NUCLEIC ACID; PATTERN. // ID SAN8801 RA Saitou N.: RT "Property and efficiency of the maximum likelihood method for molecular RT phylogeny."; RL J. Mol. Evol. 27:261-273(1988). KW PHYLOGENY. // ID SAN8701 RA Saitou N., Nei M.; RT "The neighbor-joining method: a new method for reconstructing RT phylogenetic trees."; RL Mol. Biol. Evol. 4:406-425(1987). KW PHYLOGENY. // ID SAA8401 RA Salemme A., Furano A.V.; RT "A convenient method for locating sets of related short sequences in RT DNA sequences of any length."; RL Nucleic Acids Res. 12:257-262(1984). KW NUCLEIC ACID. // ID SAJ8501 RA Sallantin J., Haiech J., Rodier F.; RT "Search for promoter sites of prokaryotic DNA using learning techniques."; RL Biochimie 67:549-553(1985). KW NUCLEIC ACID; PROMOTERS. // ID SAW7701 RA Salser W.; RT "Globin mRNA sequences: analysis of base pairing and evolutionary RT implications."; RL Cold Spring Harbor Symp. Quant. Biol. 42:985-1002(1977). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; BASE-PAIR ENERGY PARAMETERS. // ID SAD7201 RA Sankoff D.; RT "Matching sequences under deletion/insertion constraints."; RL Proc. Natl. Acad. Sci. USA 69:4-6(1972). KW ALIGNMENT. // ID SAD7501 RA Sankoff D.; RT "Minimal mutation trees of sequences."; RL SIAM J. Appl. Math. 28:35-42(1975). KW PHYLOGENY. // ID SAD8501 RA Sankoff D.; RT "Simultaneous solution of the RNA folding, alignment and protosequence RT problems."; RL SIAM J. Appl. Math. 45:810-8xx(1985). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION; ALIGMENT. // ID SAD8301 RA Sankoff D., Cedergren R.J.; RT "Simultaneous comparison of three or more sequences related by a RT tree."; RL (In) Time warps, string edits, and macromolecules: the theory and RL practice of sequence comparison, Sankoff D., Kruskal J.B., Eds., RL pp253-263, Addison-Wesley, Reading, (1983). KW MULTIPLE ALIGNMENT. // ID SAD8201 RA Sankoff D., Cedergren R.J., McKay W.; RT "A strategy for sequence phylogeny research."; RL Nucleic Acids Res. 10:421-431(1982). KW PHYLOGENY. // ID SAD8901 RA Sankoff D., Goldstein M.; RT "Probabilistic models of genome shuffling."; RL Bull. Math. Biol. 51:117-124(1989). KW NUCLEIC ACID; ALGORITHM. // ID SAD8302 RA Sankoff D., Kruskal J.B., Mainville S., Cedergren R.J.; RT "Fast algorithms to determine RNA secondary structures containing RT multiple loops."; RL (In) Time warps, string edits, and macromolecules: the theory and RL practice of sequence comparison, Sankoff D., Kruskal J.B., Eds., RL pp93-120, Addison-Wesley, Reading, (1983). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID SAM8701 RA Santibanez M., Rohde K.; RT "A multiple alignment program for protein sequences."; RL CABIOS 3:111-114(1987). KW PROTEIN; MULTIPLE ALIGNMENT. // ID SAH8401 RA Saroff H.A.; RT "The uniqueness of protein sequences. Uniqueness diagrams for the RT Dayhoff file - 1984."; RL Bull. Math. Biol. 46:661-672(1984). KW PROTEIN. // ID SAH8402 RA Saroff H.A.; RT "A note on the evaluation of similarity (homology) of short sequences RT with long sequences."; RL Bull. Math. Biol. 46:951-961(1984). KW STATISTIC. // ID SAT8201 RA Sasagawa T., Okuyama T., Teller D.C.; RT "Prediction of peptide retention times in reversed-phase high- RT performance liquid chromatography during linear gradient elution."; RL J. Chromatography 240:329-340(1982). // ID SAW8701 RA Saurin W.; RT "Repetitive palindromic sequences in Escherichia coli. Detection and RT characterization with a new computer program."; RL CABIOS 3:121-127(1987). KW NUCLEIC ACID. // ID SAW8501 RA Saurin W., Marliere P.; RT "Extraction de determinants symboliques communs a une famille de RT biosequences."; RL Biochimie 67:517-521(1985). CC In French; Abstract in English. // ID SAW8601 RA Saurin W., Marliere P.; RT "Comparaison de plusieurs sequences proteiques par reconnaissance de RT blocs conserves."; RL C.R. Acad. Sc. Paris 303:541-546(1986). KW PROTEIN; MULTIPLE ALIGNMENT. CC In French; Abstract in English. // ID SAW8702 RA Saurin W., Marliere P.; RT "Matching relational patterns in nucleic acid sequences."; RL CABIOS 3:115-120(1987). KW NUCLEIC ACID; PATTERN. // ID SCE8401 RA Schaeffer E., Sninsky J.J.; RT "Predicted secondary structure similarity in the absence of primary RT amino acid sequence homology: hepatitis B virus open reading frames."; RL Proc. Natl. Acad. Sci. USA 81:2902-2906(1984). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID SCH8101 RA Schaffer H.E., Sederoff R.R.; RT "Improved estimation of DNA fragment lengths from agarose gels."; RL Analytical Biochem. 115:113-122(1981). // ID SCH8301 RA Scheraga H.A.; RT "Recent progress in the theoretical treatment of protein folding."; RL Biopolymers 22:1-14(1983). KW PROTEIN; 3D STRUCTURE; THEORY. // ID SCM6701 RA Schiffer M., Edmunson A.B.; RT "Use of helical wheels to represent the structures of proteins and to RT identify segments with helical potential."; RL Biophys. J. 7:121-135(1967). KW PROTEIN; SECONDARY STRUCTURE; REPRESENTATION. // ID SCT8201 RA Schneider T.D., Stormo G.D., Haemer J.S., Gold L.; RT "A design for computer nucleic-acid sequence storage, retrieval, and RT manipulation."; RL Nucleic Acids Res. 10:3013-3024(1982). KW NUCLEIC ACID. // ID SCT8401 RA Schneider T.D., Stormo G.D., Yarus M.A., Gold L.; RT "Delila system tools."; RL Nucleic Acids Res. 12:129-140(1984). KW SOFTWARE PACKAGE. // ID SCJ8201 RA Schroeder J.L., Blattner F.R.; RT "Formal description of a DNA oriented computer language."; RL Nucleic Acids Res. 10:69-84(1982). KW NUCLEIC ACID. // ID SCT8601 RA Schulmeister T., Tschapek A., Zinke M.; RT "Visualization of the entire surface of a protein by cartographic RT projection."; RL CABIOS 2:265-268(1986). KW PROTEIN; 3D STRUCTURE; REPRESENTATION. // ID SCG8801 RA Schulz G.E.; RT "A critical evaluation of methods for prediction of protein secondary RT structures."; RL Ann. Rev. Biophys. Biophys. Chem. 17:1-21(1988). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION; REVIEW. // ID SCG7901 RA Schulz G.E., Schirmer R.H.; RT "Prediction of secondary structure from the amino acid sequence."; RL (In) Principles of protein structure, pp108-130, Springer-Verlag, RL Berlin, (1979). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION; REVIEW. // ID SCG7902 RA Schulz G.E., Schirmer R.H.; RT "Models, display, and documentation of protein structure."; RL (In) Principles of protein structure, pp131-148, Springer-Verlag, RL Berlin, (1979). KW PROTEIN; 3D STRUCTURE; REPRESENTATION; REVIEW. // ID SCG7903 RA Schulz G.E., Schirmer R.H.; RT "Protein evolution."; RL (In) Principles of protein structure, pp166-205, Springer-Verlag, RL Berlin, (1979). KW PROTEIN; PHYLOGENY; ALIGNMENT; MULTIPLE ALIGNMENT; REVIEW. // ID SCH8801 RA Schutz H.; RT "Prediction of protein secondary structures by pattern recognition: the RT program COHEN."; RL (In) Abstracts of: Application of data bases and microcomputers in RL molecular biology, pp.48-48, Jena (1988). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID SCR7801 RA Schwartz R.M., Dayhoff M.O.; RT "Matrices for detecting distant relationships."; RL (In) Atlas of Protein Sequence and Structure, 5 suppl. 3:353-358 RL (1978), Nat. Biomed. Res. Found., Washington D.C. // ID SCW8401 RA Schwindinger W.F., Warner J.R.; RT "DNA sequence analysis on the IBM-PC."; RL Nucleic Acids Res. 12:601-604(1984). KW NUCLEIC ACID; IBM-PC. // ID SER8201 RA Sege R.D., Saxberg B.E.H.; RT "A statistical test for comparing several nucleotide sequences."; RL Nucleic Acids Res. 10:375-389(1982). KW NUCLEIC ACID; STATISTIC. // ID SER8101 RA Sege R.D., Soll D., Ruddle F.H., Queen C.L.; RT "A conversational system for the computer analysis of nucleic acid RT sequences."; RL Nucleic Acids Res. 9:437-444(1981). KW NUCLEIC ACID. // ID SEE8801 RA Sel'kov E.E., Goryanin I.I., Kaimachnikov N.P., Shevelev E.L., Yunus I.A.; RT "Data and knowledge banks on enzymes and metabolic pathways."; RL (In) Abstracts of: Application of data bases and microcomputers in RL molecular biology, pp.19-19, Jena (1988). KW PROTEIN; DATA BANK. // ID SEP7401 RA Sellers P.H.; RT "An algorithm for the difference between two finite sequences."; RL J. Combinator. Theor. 16:253-258(1974). KW ALGORITHM. // ID SEP7402 RA Sellers P.H.; RT "On the theory and computation of evolutionary distances."; RL SIAM J. Appl. Math. 26:787-793(1974). KW PHYLOGENY. // ID SEP7901 RA Sellers P.H.; RT "Pattern recognition in genetic sequences."; RL Proc. Natl. Acad. Sci. USA 76:3041-3041(1979). KW PATTERN. // ID SEP8001 RA Sellers P.H.; RT "The theory and computation of evolutionary distances; pattern RT recognition."; RL J. Algorithms 1:359-373(1980). KW PHYLOGENY; PATTERN. // ID SEP8401 RA Sellers P.H.; RT "Pattern recognition in genetic sequences by mismatch density."; RL Bull. Math. Biol. 46:501-514(1984). KW PATTERN. // ID SEY8601 RA Seto Y., Nozaki Y., Sakakibara S.; RT "Data base for information of peptide (DBIP): efficient production of RT protein sequence data base and its problem."; RL Protein, Nucleic Acid and Enzyme 29:195-209(1986). KW DATA BANK; PROTEIN. CC In Japanese. // ID SHD8401 RA Shalloway D., Deering N.R.; RT "Recombinant DNA data management at the restriction and functional RT site level."; RL Nucleic Acids Res. 12:739-750(1984). // ID SHD8801 RA Shalloway D., Sneddon S.F., Little E.K.; RT "Microcomputer-based three-dimensional and stereoscopic macromolecular RT graphics display."; RL CABIOS 4:193-196(1988). KW PROTEIN; 3D STRUCTURE; REPRESENTATION; IBM-PC. // ID SHB8801 RA Shapiro B.A.; RT "An algorithm for comparing multiple RNA secondary structures." RL CABIOS 4:387-393(1988). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE. // ID SHB8401 RA Shapiro B.A., Lipkin L.E., Maizel J.V. Jr.; RT "An interactive technique for the display of nucleic acid secondary RT structure."; RL Nucleic Acids Res. 12:7041-7052(1984). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; REPRESENTATION. // ID SHB8402 RA Shapiro B.A., Maizel J., Lipkin L.E., Currey K.M., Whitney C.; RT "Generating non-overlapping displays of nucleic acid secondary RT structure."; RL Nucleic Acids Res. 12:75-88(1984). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; REPRESENTATION. // ID SHB8601 RA Shapiro B.A., Nussinov R., Lipkin L.E., Maizel J.V. Jr.; RT "A sequence analysis system encompassing rules for DNA helical RT distortion."; RL Nucleic Acids Res. 14:75-86(1986). KW NUCLEIC ACID; DNA; SECONDARY STRUCTURE; PREDICTION. // ID SHB8701 RA Shapiro B.A., Nussinov R., Lipkin L.E., Maizel J.V. Jr.; RT "An interactive dot matrix system for locating potentially significant RT features in nucleic acid molecules."; RL J. Biomol. Struct. Dyn. 4:697-706(1987). KW NUCLEIC ACID; DNA; SECONDARY STRUCTURE; PREDICTION; DOT MATRIX. // ID SHM8601 RA Shapiro M.B., Senapathy P.; RT "Automated preparation of DNA sequences for publication."; RL Nucleic Acids Res. 14:65-73(1986). KW NUCLEIC ACID. // ID SHJ8101 RA Shepherd J.C.W.; RT "Method to determine the reading frame of a protein from the purine/ RT pyrimidine genome sequence and its possible evolutionary RT justification."; RL Proc. Natl. Acad. Sci. USA 78:1596-1600(1981). KW NUCLEIC ACID; CODING SEQUENCE IDENTIFICATION. // ID SHJ8102 RA Shepherd J.C.W.; RT "Periodic correlations in DNA sequences and evidence suggesting their RT evolutionary origin in a comma-less genetic code."; RL J. Mol. Evol. 17:94-102(1981). KW NUCLEIC ACID; CODING SEQUENCE IDENTIFICATION. // ID SHJ8401 RA Shepherd J.C.W.; RT "Fossil remnants of a primeval genetic code in all forms of life ?"; RL Trends in Biochem. Sci. 9:8-10(1984). KW NUCLEIC ACID; CODING SEQUENCE IDENTIFICATION. // ID SHR8501 RA Sheridan R.P., Dixon J.S., Venkataraghavan R.; RT "Generating plausible protein folds by secondary structure similarity."; RL Int. J. Pept. Prot. Res. 25:132-143(1985). KW PROTEIN; SECONDARY STRUCTURE; 3D STRUCTURE; PREDICTION. // ID SHS8801 RA Sherman S.A., Degtereva L.N., Rakova A.A., Timoshchuk T.A.; RT "Information and software to operate on the three-dimensional protein RT structure data base."; RL (In) Abstracts of: Application of data bases and microcomputers in RL molecular biology, pp.54-54, Jena (1988). KW PROTEIN; DATA BANK; TERTIARY STRUCTURE; FORTRAN; IBM-PC. // ID SHV8801 RA Shestopalov B.V.; RT "Amino acid template useful for alpha-helix-turn-alpha-helix RT prediction."; RL FEBS Letters 233:105-108(1988). KW PROTEIN; DNA-BINDING. // ID SHV8802 RA Shestopalov B.V.; RT "Prediction of DNA-recognizing protein supersecondary structure alpha- RT helix-turn-alpha-helix by a method based on modified Ohlendorf-Anderson- RT Matthews necessary stereochemical existence requirements."; RL Molecular Biology (URSS) 22:323-330(1988). KW PROTEIN; DNA-BINDING. // ID SHR8601 RA Shortridge R.D., Pirtle I.L., Pirtle R.M.; RT "IBM microcomputer programs that analyze DNA sequences for tRNA RT genes."; RL CABIOS 2:13-17(1986). KW NUCLEIC ACID; TRNA; LOCATION; BASIC; IBM-PC. // ID SHM8101 RA Shulman M.J., Steinberg C.M., Westmoreland N.; RT "The coding function of nucleotide sequences can be discerned by RT statistical analysis."; RL J. Theor. Biol. 88:409-420(1981). KW NUCLEIC ACID; CODING SEQUENCE IDENTIFICATION. // ID SIK8801 RA Sidman K.E., George D.G., Barker W.C., Hunt L.T.; RT "The Protein Identification Resource."; RL Nucleic Acids Res. 16:1869-1871(1988). KW PROTEIN; DATA BANK. // ID SIB8601 RA Silverman B.D., Linsker R.; RT "A measure of DNA periodicity."; RL J. Theor. Biol. 118:295-3xx(1986). KW NUCLEIC ACID. // ID SIR8201 RA Singhal R.P., Ray R.C., Dobbs L.; RT "Computer program for storage and retrieval of the nucleic acid RT structures. Storing and updating of tRNA sequences - Drawing of the RT secondary structure of tRNA by computer."; RL Computer Programs in Biomedicine 14:277-282(1982). KW NUCLEIC ACID; TRNA; REPRESENTATION. // ID SJS8901 RA Sjorberg S., Carlsson P., Enerback S., Bjursell G.; RT "A compact, flexible and cheap system for acquiring sequence data from RT autoradiograms with a digitizer and transferring it to an arbitrary host RT computer."; RL CABIOS 5:41-46(1989). KW NUCLEIC ACID; DATA ENTRY. // ID SKH8801 RA Sklenar H.; RT "Sequence dependent curvatures of DNA."; RL (In) Abstracts of: Application of data bases and microcomputers in RL molecular biology, pp.58-58, Jena (1988). KW NUCLEIC ACID; DNA; SECONDARY STRUCTURE. // ID SMD8601 RA Smith D.H., Brutlag D.L., Friedland P., Kedes L.H.; RT "BIONET: a national computer resource for molecular biology."; RL Nucleic Acids Res. 14:17-20(1986). KW COMPUTING RESOURCE; BIONET. // ID SMD8801 RA Smith D.W.; RT "A complete, yet flexible, system for DNA/protein sequence analysis RT using VAX/VMS computers."; RL CABIOS 4:212-212(1988). KW NUCLEIC ACID; PROTEIN; SOFTWARE PACKAGE; VAX. // ID SMR8801 RA Smith R.; RT "A finite state machine algorithm for finding restriction sites and RT other pattern matching applications."; RL CABIOS 4:459-465(1988). KW NUCLEIC ACID; RESTRICTION SITE. // ID SMR8401 RA Smith R.J.; RT "The analysis of nucleic acid sequences."; RL (In) Microcomputers in biology: a practical approach, Ireland C.R., RL Long S.P., Eds., pp151-177, IRL Press, Oxford, (1984). KW NUCLEIC ACID. // ID SMT8301 RA Smith T.F., Burks C.; RT "Searching for sequence similarities."; RL Nature 301:194-194(1983). KW SIMILARITY SEARCH; HOMOLOGY. // ID SMT8601 RA Smith T.F., Gruskin K., Tolman S., Faulkner D.V.; RT "The molecular biology computer research resource."; RL Nucleic Acids Res. 14:25-29(1986). KW COMPUTING RESOURCE. // ID SMT8101 RA Smith T.F., Waterman M.S.; RT "Comparison of bio-sequences."; RL Adv. Appl. Math. 2:482-489(1981). KW ALIGNMENT. // ID SMT8102 RA Smith T.F., Waterman M.S.; RT "Identification of common molecular subsequences."; RL J. Mol. Biol. 147:195-197(1981). KW HOMOLOGY. // ID SMT8501 RA Smith T.F., Waterman M.S., Burks C.; RT "The statistical distribution of nucleic acid similarities."; RL Nucleic Acids Res. 13:645-656(1985). KW NUCLEIC ACID; STATISTIC. // ID SMT8103 RA Smith T.F., Waterman M.S., Fitch W.M.; RT "Comparative biosequence metrics."; RL J. Mol. Evol. 18:38-46(1981). KW HOMOLOGY. // ID SMT8302 RA Smith T.F., Waterman M.S., Sadler J.R.; RT "Statistical characterization of nucleic acid sequence functional RT domains."; RL Nucleic Acids Res. 11:2205-2220(1983). KW NUCLEIC ACID; STATISTIC. // ID SMO8101 RA Smithies O., Engels W.R., Devereux J., Slightom J.L., Shen S.; RT "Base substitutions, length differences and DNA strand asymmetries in RT the human g-gamma and a-gamma fetal globin gene region."; RL Cell 26:345-353(1981). // ID SOE8601 RA Sobel E., Martinez H.M.; RT "A multiple sequence alignment program."; RL Nucleic Acids Res. 14:363-374(1986). KW MULTIPLE ALIGNMENT; C LANGUAGE; VAX. // ID SOJ8401 RA Sobieski J.M., Chen K.N., Filiatreau J.C., Pickett M.H., Fox G.E.; RT "16S rRNA oligonucleotide catalog data base."; RL Nucleic Acids Res. 12:141-148(1984). KW NUCLEIC ACID; RRNA; DATA BANK. // ID SOJ8701 RA Sourdis J., Krimbas C.; RT "Accuracy of phylogenetic trees estimated from DNA sequence data."; RL Mol. Biol. Evol. 4:159-166(1987). KW PHYLOGENY. // ID SOJ8801 RA Sourdis J., Nei M.; RT "Relative efficiencies of the maximum parsimony and distance-matrix RT methods in obtaining the correct phylogenetic tree."; RL Mol. Biol. Evol. 5:298-311(1988). KW PHYLOGENY. // ID SOE8001 RA Southern E.M.; RT "Calculation of size from mobility."; RL Methods in Enzymology 68:161-162(1980). KW NUCLEIC ACID. // ID SOE7901 RA Southern E.M.; RT "Measurement of DNA length by gel electrophoresis."; RL Analytical Biochem. 100:319-323(1979). KW NUCLEIC ACID. // ID SPJ8501 RA Spouge J.L.; RT "Improving sequence-matching algorithms by working from both ends."; RL J. Mol. Biol. 181:137-138(1985). KW ALIGNMENT. // ID SPM8701 RA Sprinzl M., Hartmann T., Meissner F., Moll J., Vorderwulbecke T.; RT "Compilation of tRNA sequences."; RL Nucleic Acids Res. 15:r53-r188(1987). KW NUCLEIC ACID; TRNA; DATA BANK. // ID SPY8801 RA Sprizhitsky Y.A.; RT "The new format for data base of the biopolymer primary structures."; RL (In) Abstracts of: Application of data bases and microcomputers in RL molecular biology, pp.17-17, Jena (1988). KW NUCLEIC ACID; PROTEIN; DATA BANK. // ID STR7701 RA Staden R.; RT "Sequence data handling by computer."; RL Nucleic Acids Res. 4:4037-4051(1977). KW NUCLEIC ACID. // ID STR7801 RA Staden R.; RT "Further procedures for sequence analysis by computer."; RL Nucleic Acids Res. 5:1013-1015(1978). KW NUCLEIC ACID. // ID STR7901 RA Staden R.; RT "A strategy of DNA sequencing employing computer programs."; RL Nucleic Acids Res. 6:2601-2610(1979). KW NUCLEIC ACID. // ID STR8001 RA Staden R.; RT "A computer program to search for tRNA genes."; RL Nucleic Acids Res. 8:817-825(1980). KW NUCLEIC ACID; TRNA; LOCATION. // ID STR8002 RA Staden R.; RT "A new computer method for the storage and manipulation of DNA gel RT reading data."; RL Nucleic Acids Res. 8:3673-3694(1980). KW NUCLEIC ACID. // ID STR8201 RA Staden R.; RT "An interactive graphics program for comparing and aligning nucleic RT acid and amino acid sequences."; RL Nucleic Acids Res. 10:2951-2961(1982). KW NUCLEIC ACID; PROTEIN; ALIGNMENT; DOT MATRIX. // ID STR8202 RA Staden R.; RT "Automation of the computer handling of gel reading data produced by RT the shotgun method of DNA sequencing."; RL Nucleic Acids Res. 10:4731-4751(1982). KW NUCLEIC ACID; SEQUENCE ASSEMBLY. // ID STR8401 RA Staden R.; RT "A computer program to enter DNA gel reading data into a computer."; RL Nucleic Acids Res. 12:499-503(1984). KW NUCLEIC ACID; GEL SCANNING. // ID STR8402 RA Staden R.; RT "Computer methods to locate signals in nucleic acid sequences."; RL Nucleic Acids Res. 12:505-519(1984). KW NUCLEIC ACID; PROMOTERS; SPLICE JUNCTIONS; PATTERN. // ID STR8403 RA Staden R.; RT "Graphic methods to determine the function of nucleic acid sequences."; RL Nucleic Acids Res. 12:521-538(1984). KW NUCLEIC ACID. // ID STR8404 RA Staden R.; RT "Measurements of the effects that coding for a protein has on a DNA RT sequence and their use for finding genes."; RL Nucleic Acids Res. 12:551-567(1984). KW NUCLEIC ACID; CODING SEQUENCE IDENTIFICATION. // ID STR8405 RA Staden R.; RT "Computer methods to aid the determination and analysis of DNA RT sequences."; RL Biochem. Soc. Trans. 12:1005-1008(1984). KW NUCLEIC ACID. // ID STR8501 RA Staden R.; RT "Computer methods to locate genes and signals in nucleic acid sequences."; RL (In) Genetic Engineering, Principle and Methods, Setlow J.K., RL Hollaender A., Eds., 7:67-114, Plenum Press, New-York, (1985). KW NUCLEIC ACID; CODING SEQUENCE IDENTIFICATION; SPLICE JUNCTIONS; PATTERN. // ID STR8601 RA Staden R.; RT "The current status and portability of our sequence handling RT software."; RL Nucleic Acids Res. 14:217-231(1986). KW SOFTWARE PACKAGE. // ID STR8701 RA Staden R.; RT "Computer handling of DNA sequencing projects."; RL (In) Nucleic acid and protein sequence analysis a practical approach, RL Bishop M.J., Rawlings C.J., Eds., pp359-385, IRL Press, Oxford, (1987). KW NUCLEIC ACID; SEQUENCE ASSEMBLY; GEL SCANNING. // ID STR8801 RA Staden R.; RT "Methods to define and locate patterns of motifs in sequences."; RL CABIOS 4:53-60(1988). KW PATTERN. // ID STR8901 RA Staden R.; RT "Methods for calculating the probabilities of finding patterns in RT sequences."; RL CABIOS 5:89-96(1989). KW PATTERN. // ID STR8203 RA Staden R., McLachlan A.D.; RT "Codon preference and its use in identifying protein coding regions in RT long DNA sequences."; RL Nucleic Acids Res. 10:141-156(1982). KW NUCLEIC ACID; CODING SEQUENCE IDENTIFICATION. // ID STE7801 RA Stefik M.; RT "Inferring DNA structures from segmentation data."; RL Artificial Intelligence 11:85-114(1978). KW NUCLEIC ACID; RESTRICTION MAP; ARTIFICAL INTELLIGENCE. // ID STM8201 RA Sternberg M.J.E., Cohen F.E.; RT "Prediction of the secondary and tertiary structures of interferon RT from four homologous amino acid sequences."; RL Int. J. Biol. Macromol. 4:137-144(1982). KW PROTEIN; SECONDARY STRUCTURE; 3D STRUCTURE; PREDICTION. // ID STM7801 RA Sternberg M.J.E., Thornton J.M.; RT "Prediction of protein structure from amino acid sequence."; RL Nature 271:15-20(1978). KW PROTEIN; 3D STRUCTURE; PREDICTION; REVIEW. // ID STM7802 RA Sternberg M.J.E., Thornton J.M.; RT "Prediction of protein structure from amino acid sequence."; RL Biochem. Soc. Trans. 6:1119-1123(1978). KW PROTEIN; 3D STRUCTURE; PREDICTION. // ID STP8201 RA Stockwell P.A.; RT "A large database DNA sequence handling program with generalized RT searching specifications."; RL Nucleic Acids Res. 10:115-125(1982). // ID STP8501 RA Stockwell P.A.; RT "VTUTIN: a full screen gel management editor."; RL CABIOS 1:253-259(1985). KW NUCLEIC ACID. // ID STP8701 RA Stockwell P.A.; RT "DNA sequence analysis software."; RL (In) Nucleic acid and protein sequence analysis a practical approach, RL Bishop M.J., Rawlings C.J., Eds., pp359-385, IRL Press, Oxford, (1987). KW NUCLEIC ACID; SOFTWARE PACKAGE; REVIEW. // ID STP8801 RA Stockwell P.A.; RT "HOMED: a homologous sequence editor."; RL Trends in Biochem. Sci. 13:322-324(1988). KW ALIGNMENT EDITOR. // ID STP8702 RA Stockwell P.A., Petersen G.B.; RT "HOMED: a homologous sequence editor."; RL CABIOS 3:37-43(1987). KW ALIGNMENT EDITOR. // ID STB8401 RA Stone B.N., Griesinger G.L., Modelevsky J.L.; RT "PLASMAP: an interactive computational tool for storage, retrieval and RT device-independent graphic display of conventional restriction maps."; RL Nucleic Acids Res. 12:465-471(1984). KW NUCLEIC ACID; RESTRICTION MAP; PLASMID. // ID STT8401 RA Stone T.W., Potter K.N.; RT "A DNA sequence analysis program designed for computer novices working RT in an industrial-research environment."; RL Nucleic Acids Res. 12:367-378(1984). KW NUCLEIC ACID. // ID STT8601 RA Stone T.W., Potter K.N.; RT "Methylation blockage and other improvements to a comprehensive DNA RT analysis program."; RL Nucleic Acids Res. 14:255-264(1986). KW NUCLEIC ACID; RESTRICTION SITE. // ID STG8701 RA Stormo G.D.; RT "Identifying coding sequences."; RL (In) Nucleic acid and protein sequence analysis a practical approach, RL Bishop M.J., Rawlings C.J., Eds., pp359-385, IRL Press, Oxford, (1987). KW NUCLEIC ACID; CODING SEQUENCE IDENTIFICATION; PATTERN; REVIEW. // ID STG8801 RA Stormo G.D.; RT "Computer methods for analyzing sequence recognition of nucleic acids."; RL Ann. Rev. Biophys. Biophys. Chem. 17:241-263(1988). KW NUCLEIC ACID; PATTERN; REVIEW. // ID STG8201 RA Stormo G.D., Schneider T.D., Gold L.; RT "Characterization of translational initiation sites in E. coli."; RL Nucleic Acids Res. 10:2971-2996(1982). KW NUCLEIC ACID; PATTERN. // ID STG8202 RA Stormo G.D., Schneider T.D., Gold L., Ehrenfeucht A.; RT "Use of the 'Perceptron' algorithm to distinguish translational RT initiation sites in E. coli."; RL Nucleic Acids Res. 10:2997-3011(1982). KW NUCLEIC ACID; PATTERN. // ID STK8601 RA Stuber K.; RT "Nucleic acid secondary structure prediction and display."; RL Nucleic Acids Res. 14:317-326(1986). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION; REPRESENTATION. // ID STK8501 RA Stuber K.; RT "Visualisation of nucleic acid sequence structural information."; RL CABIOS 1:35-42(1985). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; REPRESENTATION. // ID STK8801 RA Stuber K., Spanier K.; RT "SEQIN-ST and CODFREG: a full screen sequence editor and a codon usage RT analysis program for the Atari-ST."; RL Nucleic Acids Res. 16:1821-1827(1988). KW NUCLEIC ACID; SOFTWARE PACKAGE; DATA ENTRY; ATARI ST. // ID STJ8801 RA Studier J.A., Keppler K.J.; RT "A note on the neighbor-joining algorithm of Saitou and Nei."; RL Mol. Biol. Evol. 5:729-731(1988). KW PHYLOGENY. // ID STG8601 RA Studnicka G.M.; RT "Quantitative computer analysis of signal sequence homologies in DNA."; RL CABIOS 2:269-275(1986). KW NUCLEIC ACID. // ID STG7801 RA Studnicka G.M., Rahn G.M., Cummings I.W., Salser W.A.; RT "Computer method for predicting the secondary structure of single- RT stranded RNA."; RL Nucleic Acids Res. 5:3365-3387(1978). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID STU8801 RA Stulich R.; RT "Computer generation of a protein sequence data base."; RL (In) Abstracts of: Application of data bases and microcomputers in RL molecular biology, pp.43-43, Jena (1988). KW PROTEIN; DATA BANK. // ID STU8901 RA Stulich R., Rohde K.; RT "EMBOPRO-an automatically generated protein sequence database."; RL CABIOS 5:15-18(1989). KW PROTEIN; DATA BANK. // ID SUG8801 RA Suboch G.M., Sprizhitsky Y.A.; RT "Statistical significance of some complex structures in DNA."; RL (In) Abstracts of: Application of data bases and microcomputers in RL molecular biology, pp.61-61, Jena (1988). KW NUCLEIC ACID; STATISTIC. // ID SUN8701 RA Summers N.L., Carlson W.D., Karplus M.; RT "Analysis of side-chain orientations in homologous proteins."; RL J. Mol. Biol. 196:175-198(1987). KW PROTEIN. // ID SWR8401 RA Swanson R.; RT "A unifying concept for the amino acid code."; RL Bull. Math. Biol. 46:187-204(1984). KW PROTEIN. // ID SWR8402 RA Swanson R.; RT "A vector representation for amino acid sequences."; RL Bull. Math. Biol. 46:623-639(1984). KW PROTEIN; SEQUENCE REPRESENTATION. // ID SWR8301 RA Sweet R.M., Eisenberg D.; RT "Correlation of sequence hydrophobicities measures similarity in RT three-dimensional protein structure."; RL J. Mol. Biol. 171:479-488(1983). KW PROTEIN. // ID TAF8401 RA Tajima F., Masatoshi N.; RT "Estimation of evolutionary distance between nucleotide sequences."; RL Mol. Biol. Evol. 3:269-285(1984). KW PHYLOGENY; EVOLUTIONARY DISTANCE. // ID TAK8801 RA Tajima K.; RT "Multiple DNA and protein sequence alignment on a workstation and a RT supercomputer."; RL CABIOS 4:467-471(1988). KW NUCLEIC ACID; PROTEIN; MULTIPLE ALIGNMENT; FORTRAN. // ID TAR8801 RA Tan R.K.-Z., Prabhakaran M., Tung C.-S., Harvey S.C.; RT "AUGUR: a program to predict, display and analyze the tertiary RT structure of B-DNA."; RL CABIOS 4:147-151(1988). KW NUCLEIC ACID; DNA; 3D STRUCTURE; PREDICTION; REPRESENTATION; VAX; KW FORTRAN. // ID TAS7601 RA Tanaka S., Scheraga H.S.; RT "Statistical mechanical treatment of protein conformation. A four RT state model for specific-sequence copolymers of amino acids."; RL Macromolecules 9:812-8xx(1976). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID TAY8201 RA Tateno Y., Nei M., Tajima F.; RT "Accuracy of estimated phylogenetic trees from molecular data. RT I. Distantly related species."; RL J. Mol. Evol. 18:387-404(1982). KW PHYLOGENY. // ID TAS8901 RA Tavare S., Giddings B.W.; RT "Some statistical aspects of primary structure of nucleotide sequences."; RL (In) Mathematical methods for DNA sequences, Waterman M.S., Ed., RL pp117-132, CRC Press, Boca Raton, (1989). KW NUCLEIC ACID; STATISTIC. // ID TAS8902 RA Tavare S., Song B.; RT "Codon preference and primary sequence structure in protein-coding RT regions."; RL Bull. Math. Biol. 51:95-115(1989). KW NUCLEIC ACID; CODING SEQUENCE IDENTIFICATION. // ID TAP8401 RA Taylor P.; RT "A fast homology program for aligning biological sequences."; RL Nucleic Acids Res. 12:447-455(1984). KW ALIGNMENT. // ID TAP8601 RA Taylor P.; RT "A computer program for translating DNA sequences into protein."; RL Nucleic Acids Res. 14:437-441(1986). KW NUCLEIC ACID; PROTEIN; TRANSLATION. // ID TAP8801 RA Taylor P.; RT "A program for drawing evolutionary trees."; RL CABIOS 4:441-443(1988). KW PHYLOGENY; FORTRAN. // ID TAW8601 RA Taylor W.R.; RT "Identification of protein sequence homology by consensus template RT alignment."; RL J. Mol. Biol. 188:233-258(1986). KW PROTEIN. // ID TAW8602 RA Taylor W.R.; RT "The classification of amino acid conservation."; RL J. Theor. Biol. 119:205-218(1986). KW PROTEIN. // ID TAW8603 RA Taylor W.R.; RT "Toward a practical grammar of protein structure: protein structure RT prediction by template fitting."; RL (In) Computer graphics and molecular modeling, Fletterick R., RL Zoller M., Eds., pp77-84, Cold Spring Harbor Laboratory, New-York, (1986). KW PROTEIN. // ID TAW8701 RA Taylor W.R.; RT "Protein structure prediction."; RL (In) Nucleic acid and protein sequence analysis a practical approach, RL Bishop M.J., Rawlings C.J., Eds., pp359-385, IRL Press, Oxford, (1987). KW PROTEIN. // ID TAW8702 RA Taylor W.R.; RT "Multiple sequence alignment by a pairwise algorithm."; RL CABIOS 3:81-87(1987). KW MULTIPLE ALIGNMENT. // ID TAW8801 RA Taylor W.R.; RT "A flexible method to align large numbers of biological sequences."; RL J. Mol. Evol. 28:161-169(1988). KW MULTIPLE ALIGNMENT. // ID TAW8301 RA Taylor W.R., Thornton J.M.; RT "Prediction of super-secondary structure in proteins."; RL Nature 301:540-542(1983). KW PROTEIN; SECONDARY STRUCTURE; 3D STRUCTURE; PREDICTION. // ID TAW8401 RA Taylor W.R., Thornton J.M.; RT "Recognition of super-secondary structure in proteins."; RL J. Mol. Biol. 173:487-514(1984). KW PROTEIN; SECONDARY STRUCTURE; 3D STRUCTURE; PREDICTION. // ID THJ8601 RA Thornton J.M., Edwards M.S., Taylor W.R., Barlow D.J.; RT "Location of 'continuous' antigenic determinants in the protuding RT regions of proteins."; RL EMBO J. 5:409-413(1986). KW PROTEIN; ANTIGENIC DETERMINANT; PREDICTION; 3D STRUCTURE. // ID TII7301 RA Tinoco I. Jr., Borer P.N., Dengler B., Levine M.D., et al.; RT "Improved estimation of secondary structure in ribonucleic acids."; RL Nature New Biology 264:40-41(1973). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID TII7101 RA Tinoco I. Jr., Uhlenbeck O.C., Levine M.D.; RT "Estimation of secondary structure in ribonucleic acids."; RL Nature 230:362-367(1971). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID TOC8201 RA Tolstoshev C.M., Blakesley R.W.; RT "RSITE: a computer program to predict the recognition sequence of a RT restriction enzyme."; RL Nucleic Acids Res. 10:1-17(1982). KW NUCLEIC ACID; RESTRICTION SITE. // ID TOC8301 RA Tolstoshev C.M., Jeltsch J.-M., Fritz R., Oudet P.; RT "A DNA recombinant database management system."; RL Nucleic Acids Res. 11:4611-4627(1983). KW NUCLEIC ACID. // ID TOC8601 RA Tolstoshev C.M., Matthes H.W.D., Oudet P.; RT "Computer management of oligonucleotide synthesis on cellulose RT filters."; RL Nucleic Acids Res. 14:405-415(1986). // ID TRA8601 RA Tramontano A., Macchiato M.F.; RT "Probability of coding of a DNA sequence: an algorithm to predict RT translated reading frames from their thermodynamic characteristics."; RL Nucleic Acids Res. 14:127-135(1986). KW NUCLEIC ACID; CODING SEQUENCE IDENTIFICATION. // ID TRE8501 RA Trifonov E.N.; RT "Construction of an algorithm for locating splicing functions."; RL (In) The role of data in scientific progress, Glaeser P.S., Ed., RL pp119-124, Elsevier, North Holland, (1985). KW NUCLEIC ACID; SPLICE JUNCTIONS. // ID TUP8801 RA Tuffery P., Dessen P., Mugnier C., Hazout S.; RT "Restriction map construction using a 'complete sentences compatibility RT algorithm."; RL CABIOS 4:103-110(1988). KW NUCLEIC ACID; RESTRICTION MAP. // ID TUC8601 RA Tung C.-S., Harvey S.C.; RT "Computer graphics program to reveal the dependence of the gross RT three-dimensional structure of the B-DNA double helix on primary RT structure."; RL Nucleic Acids Res. 14:381-387(1986). KW NUCLEIC ACID; DNA; 3D STRUCTURE; PREDICTION. // ID TUD8801 RA Turner D.H., Sugimoto N., Freier S.M.; RT "RNA structure prediction."; RL Ann. Rev. Biophys. Biophys. Chem. 17:167-192(1988). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION; REVIEW. // ID TYH8501 RA Tyson H., Haley B.; RT "Alignment of nucleotide or amino acid sequences on microcomputers, RT using a modification of Sellers' (1974) algorithm which avoids the RT need for calculation of the complete distance matrix."; RL Computer Programs in Biomedicine 21:3-10(1985). KW ALIGNMENT. // ID UCH8601 RA Uchida H.; RT "DNA data bank of Japan."; RL Protein, Nucleic Acid and Enzyme 29:159-162(1986). KW NUCLEIC ACID; DATA BANK. CC In Japanese. // ID ULA8801 RA Uljanov A.V., Abagyan R.A., Skryabin K.G.; RT "MACS - effective algorithm to search signals based on physico- RT chemical properties of DNA."; RL (In) Abstracts of: Application of data bases and microcomputers in RL molecular biology, pp.37-37, Jena (1988). KW NUCLEIC ACID; PATTERN. // ID UNR8601 RA Unger R., Harel D., Sussman J.L.; RT "DNAMAT: an efficient graphic matrix sequence homology algorithm and RT its application to structural analysis."; RL CABIOS 2:283-289(1986). KW DOT MATRIX. // ID USR8601 RA Usha R., Murthy M.R.N.; RT "Protein structural homology: a metric approach."; RL Int. J. Pept. Prot. Res. 28:364-369(1986). KW PROTEIN; 3D STRUCTURE; ALIGNMENT. // ID VAG8501 RA Valiquette G., Zimmerman E.A., Roberts J.L.; RT "mRNA sequence predictions from homologous protein sequences."; RL J. Theor. Biol. 112:445-458(1985). KW NUCLEIC ACID; PROTEIN; TRANSLATION; PROBE SELECTION. // ID VAF8501 RA Van Bockstaele F.; RT "Sequence representation."; RL Biochimie 67:509-516(1985). KW SEQUENCE REPRESENTATION. // ID VAJ8601 RA Van den Berg J.A., Osinga M.; RT "A peptide to DNA conversion program."; RL Nucleic Acids Res. 14:137-140(1986). KW PROTEIN; NUCLEIC ACID; TRANSLATION. // ID VAL8601 RA Van Rompuy L.L., Lesage C., Vanderhaegen M.E., Telemans M.P., RA Zabeau M.F.; RT "An improved FORTRAN 77 recombinant DNA database management system RT with graphic extensions in GKS."; RL CABIOS 2:251-255(1986). KW NUCLEIC ACID; FORTRAN. // ID VAL8701 RA Van Thiel L.R., Michalewicz J.; RT "Restriction enzyme cleavage site identification using Microsoft RT Word."; RL Biotechniques 5:115-115(1987). KW NUCLEIC ACID; RESTRICTION SITE; WORD PROCESSOR. // ID VAJ8401 RA Vass J.K., Wilson R.H.; RT "'ZSTATS' - a statistical analysis for potential Z-DNA sequences."; RL Nucleic Acids Res. 12:825-832(1984). KW NUCLEIC ACID; Z-DNA; LOCATION; STATISTIC. // ID VIL8701 RA Vickery L.E.; RT "Interactive analysis of protein structure using microcomputer RT spreadsheet."; RL Trends in Biochem. Sci. 12:37-39(1987). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION; IBM-PC; SPREADSHEET. // ID VIM8801 RA Vihinen M.; RT "An algorithm for simultaneous comparison of several sequences."; RL CABIOS 4:89-92(1988). KW MULTIPLE ALIGNMENT; ALGORITHM. // ID VIC8801 RA Vincent C.; RT "Les logiciels de biologie molculaire pour ordinateurs personnels."; RL Biofutur 74(Suppl):3-6(1988). KW NUCLEIC ACID; PROTEIN; SOFTWARE PACKAGE; REVIEW; IBM PC. CC In French. // ID VIM8901 RA Vingron M., Argos P.; RT "A fast and sensitive multiple sequence alignment algorithm."; RL CABIOS 5:115-121(1989). KW PROTEIN; MULTIPLE ALIGNMENT; C LANGUAGE; VAX. // ID VIV8701 RA Viswanadhan V.N.; RT "On the prediction of functionally equivalent residues at given sites RT in proteins."; RL J. Theor. Biol. 124:123-125(1987). KW PROTEIN. // ID VOS8901 RA Volinia S., Gambari R., Bernardi F., Barrai I.; RT "The frequency of oligonucleotides in mammalian genic regions."; RL CABIOS 5:33-40(1989). KW NUCLEIC ACID. // ID VOF8601 RA Vonderviszt F., Matrai G., Simon I; RT "Characteristic sequential residue environment of amino acids in RT proteins."; RL Int. J. Pept. Prot. Res. 27:483-492(1986). KW PROTEIN; STATISTIC. // ID VOF8602 RA Vonderviszt F., Simon I.; RT "A possible way for prediction of domain boundaries in globular RT proteins from amino acid sequence."; RL Biochem. Biophys. Res. Commun. 139:11-17(1986). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID VOG8101 RA Von Heijne G.; RT "On the hydrophobic nature of signal sequences."; RL Eur. J. Biochem. 116:419-422(1981). KW PROTEIN; SIGNAL SEQUENCE. // ID VOG8102 RA Von Heijne G.; RT "Membrane proteins. The amino acid composition of membrane-penetrating RT segments."; RL Eur. J. Biochem. 120:275-278(1981). KW PROTEIN; HYDROPHOBICITY; SCALE. // ID VOG8301 RA Von Heijne G.; RT "Patterns of amino acids near signal-sequence cleavage sites."; RL Eur. J. Biochem. 133:17-21(1983). KW PROTEIN; SIGNAL SEQUENCE. // ID VOG8401 RA Von Heijne G.; RT "Analysis of the distribution of charged residues in the N-terminal RT region of signal sequences: implications for protein export in RT prokaryotic and eukaryotic cells."; RL EMBO J. 3:2315-2318(1984). KW PROTEIN; SIGNAL SEQUENCE. // ID VOG8402 RA Von Heijne G.; RT "How signal sequences maintain cleavage specificity."; RL J. Mol. Biol. 173:243-251(1984). KW PROTEIN; SIGNAL SEQUENCE. // ID VOG8501 RA Von Heijne G.; RT "Signal sequences. The limits of variation."; RL J. Mol. Biol. 184:99-105(1985). KW PROTEIN; SIGNAL SEQUENCE. // ID VOG8601 RA Von Heijne G.; RT "A new method for predicting signal sequences cleavage sites."; RL Nucleic Acids Res. 14:4683-4690(1986). KW PROTEIN; SIGNAL SEQUENCE. // ID VOG8701 RA Von Heijne G.; RT "SIGPEP: a sequence database for secretory signal peptides."; RL Protein Seq. Data Anal. 1:41-42(1987). KW PROTEIN; SIGNAL SEQUENCE; DATA BANK. // ID VOG8702 RA Von Heijne G.; RT "Sequence analysis in molecular biology. Treasure trove or trivial RT pursuit."; RL (In) Academic Press, London, (1987). KW PROTEIN; NUCLEIC ACID; REVIEW. // ID VOG8801 RA Von Heijne G.; RT "Getting sense out of sequence data"; RL Nature 333:605-607(1988). KW NUCLEIC ACID; PROTEIN; SOFTWARE PACKAGE; REVIEW. // ID WAJ8601 RA Walker J.R., Willet P.; RT "Compression of nucleic acid and protein sequence data."; RL CABIOS 2:89-93(1986). KW NUCLEIC ACID; PROTEIN; STORAGE METHOD. // ID WAB8601 RA Wallace B.A., Cascio M., Mielke D.L.; RT "Evaluation of methods for the prediction of membrane protein secondary RT structures."; RL Proc. Natl. Acad. Sci. USA 83:9423-9427(1986). KW PROTEIN; HYDROPHOBICITY; TRANSMEMBRANE REGION. // ID WAR8401 RA Wallace R.B.; RT "DNASTAR a microcomputer-based DNA sequence management system."; RL Biotechnology Software 1:6(1984). KW NUCLEIC ACID; SOFTWARE PACKAGE. // ID WAP7401 RA Warme P.K., Momany F.A., Rumball S.V., Tuttle R.V., Scheraga H.A.; RT "Computation of structure of homologous proteins: alpha-lactalbumin RT from lysozyme."; RL Biochemistry 13:768-782(1974). KW PROTEIN. // ID WAK8401 RA Watanabe K., Yasukawa K., Iso K.; RT "Graphic display of nucleic acid structure by a microcomputer."; RL Nucleic Acids Res. 12:801-809(1984). KW NUCLEIC ACID; TRNA; SECONDARY STRUCTURE; REPRESENTATION. // ID WAK8501 RA Watanabe K., Urano Y., Tamaoki T.; RT "Optimal alignments of biological sequences on a microcomputer."; RL CABIOS 1:83-87(1985). KW ALIGNMENT. // ID WAM8301 RA Waterman M.S.; RT "Sequence alignments in the neighborhood of the optimum with general RT application to dynamic programming."; RL Proc. Natl. Acad. Sci. USA 80:3123-3124(1983). KW ALIGNMENT. // ID WAM8302 RA Waterman M.S.; RT "Frequency of restriction sites."; RL Nucleic Acids Res. 11:8951-89xx(1983). KW NUCLEIC ACID; RESTRICTION SITE; STATISTIC. // ID WAM8401 RA Waterman M.S.; RT "General methods of sequence comparison."; RL Bull. Math. Biol. 46:473-500(1984). KW ALIGNMENT. // ID WAM8402 RA Waterman M.S.; RT "Efficient sequence alignment algorithms."; RL J. Theor. Biol. 108:333-337(1984). KW ALIGNMENT. // ID WAM8601 RA Waterman M.S.; RT "Multiple sequence alignments by consensus."; RL Nucleic Acids Res. 14:9095-9102(1986). KW MULTIPLE ALIGNMENT. // ID WAM8801 RA Waterman M.S.; RT "Computer analysis of nucleic acid sequences."; RL Methods in Enzymology 164:765-795(1988). KW NUCLEIC ACID; REVIEW. // ID WAM8901 RA Waterman M.S.; RT "Sequence alignments."; RL (In) Mathematical methods for DNA sequences, Waterman M.S., Ed., RL pp53-92, CRC Press, Boca Raton, (1989). KW NUCLEIC ACID; ALIGNMENT; MULTIPLE ALIGNMENT. // ID WAM8902 RA Waterman M.S.; RT "Consensus patterns in sequences."; RL (In) Mathematical methods for DNA sequences, Waterman M.S., Ed., RL pp93-116, CRC Press, Boca Raton, (1989). KW NUCLEIC ACID; PATTERN. // ID WAM8903 RA Waterman M.S.; RT "Consensus methods for folding single-stranded nucleic acids."; RL (In) Mathematical methods for DNA sequences, Waterman M.S., Ed., RL pp185-224, CRC Press, Boca Raton, (1989). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID WAM8403 RA Waterman M.S., Arratia R., Galas D.J.; RT "Pattern recognition in several sequences: consensus and alignment."; RL Bull. Math. Biol. 46:515-527(1984). KW ALIGNMENT; PATTERN. // ID WAM8501 RA Waterman M.S., Byers T.H.; RT "A dynamic programming algorithm to find all solutions in a RT neighborhood of the optimum."; RL Math. Biosci. 77:179-188(1985). KW ALIGNMENT. // ID WAM8701 RA Waterman M.S., Eggert M.; RT "A new algorithm for best subsequence alignments with application to RT tRNA-rRNA comparisons."; RL J. Mol. Biol. 197:723-728(1987). KW ALIGNMENT. // ID WAM8702 RA Waterman M.S., Gordon L., Arratia R.; RT "Phase transitions in sequence matches and nucleic acid structure."; RL Proc. Natl. Acad. Sci. USA 84:1239-1243(1987). KW NUCLEIC ACID. // ID WAM8404 RA Waterman M.S., Perlwitz M.; RT "Line geometries for sequence comparisons."; RL Bull. Math. Biol. 46:567-577(1984). // ID WAM7801 RA Waterman M.S., Smith T.F.; RT "RNA secondary structure: a complete mathematical analysis."; RL Math. Biosci. 42:257-266(1978). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID WAM8602 RA Waterman M.S., Smith T.F.; RT "Rapid dynamic programming algorithms for RNA secondary structure."; RL Adv. Appl. Math. 7:455-4xx(1986). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID WAM7601 RA Waterman M.S., Smith T.F., Beyer W.A.; RT "Some biological sequence metrics."; RL Adv. Math. 20:367-387(1976). // ID WAM8405 RA Waterman M.S., Smith T.F., Katcher H.L.; RT "Algorithms for restriction map comparisons."; RL Nucleic Acids Res. 12:237-242(1984). KW NUCLEIC ACID; RESTRICTION MAP. // ID WEM8601 RA Weise M.J.; RT "A microcomputer program for hydropathic analysis of proteins with I/O RT through word processing and graphics software."; RL CABIOS 2:103-106(1986). KW PROTEIN; HYDROPHOBICITY. // ID WEM8701 RA Weise M.J.; RT "An access interface for the MS-DOS diskette format of GenBank(R), a RT gene sequence database."; RL CABIOS 3:313-317(1987). KW NUCLEIC ACID; DATA BANK; IBM-PC. // ID WEK8801 RA Weller K.; RT "A microcomputer program using Dickerson's rules for comparative RT structural analysis of DNA sequences."; RL (In) Abstracts of: Application of data bases and microcomputers in RL molecular biology, pp.59-59, Jena (1988). KW NUCLEIC ACID; DNA; SECONDARY STRUCTURE. // ID WEK8802 RA Weller K., Castro E.; RT "RNA secondary structure prediction using microcomputers."; RL (In) Abstracts of: Application of data bases and microcomputers in RL molecular biology, pp.35-35, Jena (1988). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION; PASCAL. // ID WEG8501 RA Welling G.W., Weijer W.J., Van der Zee R., Welling-Wester S.; RT "Prediction of sequential antigenic regions in proteins."; RL FEBS Letters 188:215-218(1985). KW PROTEIN; ANTIGENIC DETERMINANT; PREDICTION; HYDROPHOBICITY SCALE. // ID WEJ8801 RA West J.; RT "Automated sequence reading and analysis."; RL Nucleic Acids Res. 16:1847-1856(1988). KW NUCLEIC ACID; GEL SCANNING; DATA ENTRY. // ID WHC8401 RA White C.T., Hardies S.C., Hutchinson C.A. III, Edgell M.H.; RT "The diagonal-traverse homology search algorithm for locating RT similarities between two sequences."; RL Nucleic Acids Res. 12:751-766(1984). KW SIMILARITY SEARCH. // ID WHJ8901 RA White J.H.; RT "An introduction to the geometry and topology of DNA structure."; RL (In) Mathematical methods for DNA sequences, Waterman M.S., Ed., RL pp225-254, CRC Press, Boca Raton, (1989). KW NUCLEIC ACID; DNA; SECONDARY STRUCTURE; THEORY. // ID WIR8601 RA Wierenga R.K., Terpstra P., Hol W.G.J.; RT "Prediction of the occurrence of the ADP-binding beta-alpha-beta fold RT in proteins, using an amino acid sequence fingerprint."; RL J. Mol. Biol. 187:101-107(1986). KW PROTEIN; PATTERN. // ID WIW8301 RA Wilbur W.J., Lipman D.J.; RT "Rapid similarity searches of nucleic acid and protein data banks."; RL Proc. Natl. Acad. Sci. USA 80:726-730(1983). // ID WIA8601 RA Williams A.L., Tinoco I. Jr.; RT "A dynamic programming algorithm for finding alternate RNA secondary RT structures."; RL Nucleic Acids Res. 14:299-315(1986). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID WIK8801 RA Williams K.M.; RT "Version 5 of the Mount-Conrad-Myers sequence analysis software package RT now available."; RL CABIOS 4:211-211(1988). KW NUCLEIC ACID; PROTEIN; SOFTWARE PACKAGE; IBM-PC; C LANGUAGE. // ID WIC8801 RA Wilmot C.M., Thornton J.M.; RT "Analysis and prediction of the different types of beta-turns in RT proteins."; RL J. Mol. Biol. 203:221-232(1988). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID WII8501 RA Wilson I.A., Haft D.H., Getzoff E.D., Tainer J.A., Lerner R.A., RA Brenner S.; RT "Identical short peptide sequences in unrelated proteins can have RT different conformations: a testing ground for theories of immune RT recognition."; RL Proc. Natl. Acad. Sci. USA 82:5255-5259(1985). KW PROTEIN. // ID WIK8101 RA Wilson K.J., Honegger A., Stotzel R.P., Hughes G.J.; RT "The behaviour of peptides on reverse-phase supports during high-pressure RT liquid chromatography."; RL Biochem. J. 199:31-41(1981). KW PROTEIN; HPLC; HYDROPHOBICITY; SCALE. // ID WOH8801 RA Wolf H., Modrow S., Motz M., Jameson B.A., Hermann G., Fortsch B.; RT "An integrated family of amino acid sequence analysis programs."; RL CABIOS 4:187-191(1988). KW PROTEIN; SOFTWARE PACKAGE. // ID WOR8101 RA Wolfenden R.V., Andersen L., Cullis P.M., Southgate C.C.F.; RT "Affinities of amino acid sides chains for solvent water."; RL Biochemistry 20:849-855(1981). KW PROTEIN; HYDROPHOBICITY; SCALE. // ID WOR7901 RA Wolfenden R.V., Cullis P.M., Southgate C.C.F.; RT "Water, protein folding, and the genetic code."; RL Science 206:575-577(1979). KW PROTEIN; HYDROPHOBICITY; SCALE. // ID WOA7401 RA Wong A.K.C., Reichert T.A., Cohen D.N., Aygun B.O.; RT "A generalized method for matching informational macromolecular code RT sequences."; RL Comput. Biol. Med. 4:43-57(1974). // ID WOK8701 RA Wood K.; RT "GENEPRO: intelligent MS-DOS software for molecular biologists."; RL Biotechnology Software 11:10-14(1987). KW PROTEIN; NUCLEIC ACID; SOFTWARE PACKAGE; IBM-PC. // ID WUT7401 RA Wu T.T., Fitch W.M., Margoliash E.; RT "The information content of protein amino acid sequence."; RL Ann. Rev. Biochem. 43:539-566(1974). KW PROTEIN. // ID WUT7301 RA Wu T.T., Kabat E.A.; RT "An attempt to evaluate the influence of neighboring amino acids RT (n-1) and (n+1) on the backbone conformation of amino acid (n) in RT proteins. Use in predicting the three-dimensional structure of the RT polypeptide backbone of other proteins."; RL J. Mol. Biol. 75:13-31(1973). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID WUM8501 RA Wulkan M., Lott T.J.; RT "Computer-aided construction of nucleic acid restriction maps using RT defined vectors."; RL CABIOS 1:235-239(1985). KW NUCLEIC ACID; RESTRICTION MAP. // ID YAK8401 RA Yamamoto K., Kitamura Y., Yoshikura H.; RT "Computation of statistical secondary structure of nucleic acids."; RL Nucleic Acids Res. 12:335-346(1984). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE. // ID YAK8701 RA Yamamoto K., Sakurai N., Yoshikura H.; RT "Graphics of RNA secondary structure; towards an object-oriented RT algorithm."; RL CABIOS 3:99-103(1987). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; REPRESENTATION. // ID YAK8501 RA Yamamoto K., Yoshikura H.; RT "Computer program for prediction of the optimal and suboptimal RT secondary structures of long RNA molecules."; RL CABIOS 1:89-94(1985). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID YAK8601 RA Yamamoto K., Yoshikura H.; RT "Relation between genomic and capsid structures in RNA viruses."; RL Nucleic Acids Res. 14:389-396(1986). // ID YAK8602 RA Yamamoto K., Yoshikura H.; RT "A new representation of protein structure: vector diagram."; RL CABIOS 2:83-88(1986). KW PROTEIN; SEQUENCE REPRESENTATION. // ID YAK8702 RA Yamamoto K., Yoshikura H.; RT "An improved algorithm for the prediction of optimum and suboptimum RT folding structures of long single-stranded RNA."; RL CABIOS 3:31-35(1987). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID YAJ8401 RA Yang J., Ye J., Wallace D.C.; RT "Computer selection of oligonucleotide probes from amino acid RT sequences for use in gene library screening."; RL Nucleic Acids Res. 12:837-843(1984). KW NUCLEIC ACID; PROTEIN; PROBE SELECTION. // ID YAJ8601 RA Yang J.T., Wu C.-S.C., Martinez H.M.; RT "Calculation of protein conformation from circular dichroism."; RL Methods in Enzymology 130:208-269(1986). KW PROTEIN; CIRCULAR DICHROISM. // ID YAN8601 RA Yasuoka N., Iga Y.; RT "Computer graphics representation of protein structure."; RL Protein, Nucleic Acid and Enzyme 29:136-142(1986). KW PROTEIN; 3D STRUCTURE; REPRESENTATION. CC In Japanese. // ID YEL8701 RA Yeh L.-S., Hunt L.T., George D.G., Barker W.C.; RT "Searching protein sequences for potential transmembrane segments."; RL Fed. Proc. 46:2232-2232(1987). KW PROTEIN. // ID YOH7701 RA Yockey H.P.; RT "A prescription which predicts functionally equivalent residues at RT given sites in protein sequences."; RL J. Theor. Biol. 67:337-343(1977). KW PROTEIN. // ID YUI8801 RA Yunus I.A., Shevelev E.L., Goryanin I.I.; RT "A software for data banks on enzymes and metabolic pathways."; RL (In) Abstracts of: Application of data bases and microcomputers in RL molecular biology, pp.20-20, Jena (1988). KW PROTEIN; DATA BANK. // ID ZEG8701 RA Zehetner G., Frischauf A., Lehrach H.; RT "Approaches to restriction map determination."; RL (In) Nucleic acid and protein sequence analysis a practical approach, RL Bishop M.J., Rawlings C.J., Eds., pp359-385, IRL Press, Oxford, (1987). KW NUCLEIC ACID; RESTRICTION MAP. // ID ZEG8601 RA Zehetner G., Lehrach H.; RT "A computer program package for restriction map analysis and RT manipulation."; RL Nucleic Acids Res. 14:335-349(1986). KW NUCLEIC ACID; RESTRICTION MAP. // ID ZIG8301 RA Zientara G.P., Nagy J.A.; RT "Proteins and polypeptides: computer graphics for space-filling model RT representations."; RL Computers and Chemistry 7:67-74(1983). KW PROTEIN; 3D STRUCTURE; REPRESENTATION. // ID ZIJ6801 RA Zimmerman J.M., Eliezer N., Simha R.; RT "The characterization of amino acid sequences in proteins by statistical RT methods."; RL J. Theor. Biol. 21:170-201(1968). KW PROTEIN; STATISTIC. // ID ZUM8901 RA Zuker M.; RT "On finding all suboptimal foldings of an RNA molecule."; RL Science 244:48-52(1989). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID ZUM8902 RA Zuker M.; RT "The use of dynamic programming algorithms in RNA secondary structure RT prediction."; RL (In) Mathematical methods for DNA sequences, Waterman M.S., Ed., RL pp159-184, CRC Press, Boca Raton, (1989). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID ZUM8401 RA Zuker M., Sankoff D.; RT "RNA secondary structures and their prediction."; RL Bull. Math. Biol. 46:591-621(1984). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION; REVIEW. // ID ZUM8901 RA Zuker M., Somorjai R.L.; RT "The alignment of protein structures in three dimensions."; RL Bull. Math. Biol. 51:55-78(1989). KW PROTEIN; TERTIARY STRUCTURE; ALIGNMENT. // ID ZUM8101 RA Zuker M., Stiegler P.; RT "Optimal computer folding of large RNA sequences using thermodynamics RT and auxiliary information."; RL Nucleic Acids Res. 9:133-148(1981). KW NUCLEIC ACID; RNA; SECONDARY STRUCTURE; PREDICTION. // ID ZVM8701 RA Zvelebil M.J., Barton G.J., Taylor W.R., Sternberg M.J.E.; RT "Prediction of protein secondary structure and actives sites using the RT alignment of homologous sequences."; RL J. Mol. Biol. 195:957-961(1987). KW PROTEIN; SECONDARY STRUCTURE; PREDICTION. // ID ZWS8401 RA Zweig S.E.; RT "Analysis of large nucleic acid dot matrices on small computers."; RL Nucleic Acids Res. 12:767-776(1984). KW NUCLEIC ACID; DOT MATRIX. // ID ZWH8201 RA Zwerling H., Mehlorn R., Packer L., McElroy R.; RT "A computer technique for structural studies of bacteriorhodopsin."; RL Methods in Enzymology 88:772-784(1982). KW PROTEIN. //