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Volume 29(1);  January 1, 2001
Articles
The Molecular Biology Database Collection: an updated compilation of biological database resources
Andreas D. Baxevanis
Nucleic Acids Res. 2001 January 1; 29(1): 1–10.
PMCID: PMC29860
Database resources of the National Center for Biotechnology Information
David L. Wheeler, Deanna M. Church, Alex E. Lash, Detlef D. Leipe, Thomas L. Madden, Joan U. Pontius, Gregory D. Schuler, Lynn M. Schriml, Tatiana A. Tatusova, Lukas Wagner, and Barbara A. Rapp
Nucleic Acids Res. 2001 January 1; 29(1): 11–16.
PMCID: PMC29800
The EMBL nucleotide sequence database
Guenter Stoesser, Wendy Baker, Alexandra van den Broek, Evelyn Camon, Maria Garcia-Pastor, Carola Kanz, Tamara Kulikova, Vincent Lombard, Rodrigo Lopez, Helen Parkinson, Nicole Redaschi, Peter Sterk, Peter Stoehr, and Mary Ann Tuli
Nucleic Acids Res. 2001 January 1; 29(1): 17–21.
PMCID: PMC29766
The COG database: new developments in phylogenetic classification of proteins from complete genomes
Roman L. Tatusov, Darren A. Natale, Igor V. Garkavtsev, Tatiana A. Tatusova, Uma T. Shankavaram, Bachoti S. Rao, Boris Kiryutin, Michael Y. Galperin, Natalie D. Fedorova, and Eugene V. Koonin
Nucleic Acids Res. 2001 January 1; 29(1): 22–28.
PMCID: PMC29819
Protein Information Resource: a community resource for expert annotation of protein data
Winona C. Barker, John S. Garavelli, Zhenglin Hou, Hongzhan Huang, Robert S. Ledley, Peter B. McGarvey, Hans-Werner Mewes, Bruce C. Orcutt, Friedhelm Pfeiffer, Akira Tsugita, C. R. Vinayaka, Chunlin Xiao, Lai-Su L. Yeh, and Cathy Wu
Nucleic Acids Res. 2001 January 1; 29(1): 29–32.
PMCID: PMC29802
CluSTr: a database of clusters of SWISS-PROT+TrEMBL proteins
Evgenia V. Kriventseva, Wolfgang Fleischmann, Evgeni M. Zdobnov, and Rolf Apweiler
Nucleic Acids Res. 2001 January 1; 29(1): 33–36.
PMCID: PMC29804
The InterPro database, an integrated documentation resource for protein families, domains and functional sites
R. Apweiler, T. K. Attwood, A. Bairoch, A. Bateman, E. Birney, M. Biswas, P. Bucher, L. Cerutti, F. Corpet, M. D. R. Croning, R. Durbin, L. Falquet, W. Fleischmann, J. Gouzy, H. Hermjakob, N. Hulo, I. Jonassen, D. Kahn, A. Kanapin, Y. Karavidopoulou, R. Lopez, B. Marx, N. J. Mulder, T. M. Oinn, M. Pagni, F. Servant, C. J. A. Sigrist, and E. M. Zdobnov
Nucleic Acids Res. 2001 January 1; 29(1): 37–40.
PMCID: PMC29841
TIGRFAMs: a protein family resource for the functional identification of proteins
Daniel H. Haft, Brendan J. Loftus, Delwood L. Richardson, Fan Yang, Jonathan A. Eisen, Ian T. Paulsen, and Owen White
Nucleic Acids Res. 2001 January 1; 29(1): 41–43.
PMCID: PMC29844
Proteome Analysis Database: online application of InterPro and CluSTr for the functional classification of proteins in whole genomes
Rolf Apweiler, Margaret Biswas, Wolfgang Fleischmann, Alexander Kanapin, Youla Karavidopoulou, Paul Kersey, Evgenia V. Kriventseva, Virginie Mittard, Nicola Mulder, Isabelle Phan, and Evgeni Zdobnov
Nucleic Acids Res. 2001 January 1; 29(1): 44–48.
PMCID: PMC29822
The MetaFam Server: a comprehensive protein family resource
Kevin A. T. Silverstein, Elizabeth Shoop, James E. Johnson, Alan Kilian, John L. Freeman, Timothy M. Kunau, Ihab A. Awad, Margaret Mayer, and Ernest F. Retzel
Nucleic Acids Res. 2001 January 1; 29(1): 49–51.
PMCID: PMC29768
iProClass: an integrated, comprehensive and annotated protein classification database
Cathy H. Wu, Chunlin Xiao, Zhenglin Hou, Hongzhan Huang, and Winona C. Barker
Nucleic Acids Res. 2001 January 1; 29(1): 52–54.
PMCID: PMC29833
A fully automatic evolutionary classification of protein folds: Dali Domain Dictionary version 3
Sabine Dietmann, Jong Park, Cedric Notredame, Andreas Heger, Michael Lappe, and Liisa Holm
Nucleic Acids Res. 2001 January 1; 29(1): 55–57.
PMCID: PMC29815
The SBASE protein domain library, release 8.0: a collection of annotated protein sequence segments
János Murvai, Kristian Vlahovicek, Endre Barta, and Sándor Pongor
Nucleic Acids Res. 2001 January 1; 29(1): 58–60.
PMCID: PMC29838
PALI—a database of Phylogeny and ALIgnment of homologous protein structures
S. Balaji, S. Sujatha, S. Sai Chetan Kumar, and N. Srinivasan
Nucleic Acids Res. 2001 January 1; 29(1): 61–65.
PMCID: PMC29825
PlasmoDB: An integrative database of the Plasmodium falciparum genome. Tools for accessing and analyzing finished and unfinished sequence data
The Plasmodium Genome Database Collaborative
Nucleic Acids Res. 2001 January 1; 29(1): 66–69.
PMCID: PMC29846
FULL-malaria: a database for a full-length enriched cDNA library from human malaria parasite, Plasmodium falciparum
Junichi Watanabe, Masahide Sasaki, Yutaka Suzuki, and Sumio Sugano
Nucleic Acids Res. 2001 January 1; 29(1): 70–71.
PMCID: PMC29775
RegulonDB (version 3.2): transcriptional regulation and operon organization in Escherichia coli K-12
Heladia Salgado, Alberto Santos-Zavaleta, Socorro Gama-Castro, Dulce Millán-Zárate, Edgar Díaz-Peredo, Fabiola Sánchez-Solano, Ernesto Pérez-Rueda, César Bonavides-Martínez, and Julio Collado-Vides
Nucleic Acids Res. 2001 January 1; 29(1): 72–74.
PMCID: PMC29794
YPD™, PombePD™ and WormPD™: model organism volumes of the BioKnowledge™ Library, an integrated resource for protein information
Maria C. Costanzo, Matthew E. Crawford, Jodi E. Hirschman, Janice E. Kranz, Philip Olsen, Laura S. Robertson, Marek S. Skrzypek, Burkhard R. Braun, Kelley Lennon Hopkins, Pinar Kondu, Carey Lengieza, Jodi E. Lew-Smith, Michael Tillberg, and James I. Garrels
Nucleic Acids Res. 2001 January 1; 29(1): 75–79.
PMCID: PMC29810
Saccharomyces Genome Database provides tools to survey gene expression and functional analysis data
Catherine A. Ball, Heng Jin, Gavin Sherlock, Shuai Weng, John C. Matese, Rey Andrada, Gail Binkley, Kara Dolinski, Selina S. Dwight, Midori A. Harris, Laurie Issel-Tarver, Mark Schroeder, David Botstein, and J. Michael Cherry
Nucleic Acids Res. 2001 January 1; 29(1): 80–81.
PMCID: PMC29796
WormBase: network access to the genome and biology of Caenorhabditis elegans
Lincoln Stein, Paul Sternberg, Richard Durbin, Jean Thierry-Mieg, and John Spieth
Nucleic Acids Res. 2001 January 1; 29(1): 82–86.
PMCID: PMC29781
The Zebrafish Information Network (ZFIN): a resource for genetic, genomic and developmental research
Judy Sprague, Eckehard Doerry, Sarah Douglas, Monte Westerfield, and the ZFIN Group
Nucleic Acids Res. 2001 January 1; 29(1): 87–90.
PMCID: PMC29808
The Mouse Genome Database (MGD): integration nexus for the laboratory mouse
Judith A. Blake, Janan T. Eppig, Joel E. Richardson, Carol J. Bult, and J. A. Kadin
Nucleic Acids Res. 2001 January 1; 29(1): 91–94.
PMCID: PMC29788
Web-based access to mouse models of human cancers: the Mouse Tumor Biology (MTB) Database
Carol J. Bult, Debra M. Krupke, Dieter Näf, John P. Sundberg, and Janan T. Eppig
Nucleic Acids Res. 2001 January 1; 29(1): 95–97.
PMCID: PMC29782
The Mouse Gene Expression Database (GXD)
Martin Ringwald, Janan T. Eppig, Dale A. Begley, John P. Corradi, Ingeborg J. McCright, Terry F. Hayamizu, David P. Hill, James A. Kadin, and Joel E. Richardson
Nucleic Acids Res. 2001 January 1; 29(1): 98–101.
PMCID: PMC29814
The Arabidopsis Information Resource (TAIR): a comprehensive database and web-based information retrieval, analysis, and visualization system for a model plant
Eva Huala, Allan W. Dickerman, Margarita Garcia-Hernandez, Danforth Weems, Leonore Reiser, Frank LaFond, David Hanley, Donald Kiphart, Mingzhe Zhuang, Wen Huang, Lukas A. Mueller, Debika Bhattacharyya, Devaki Bhaya, Bruno W. Sobral, William Beavis, David W. Meinke, Christopher D. Town, Chris Somerville, and Seung Yon Rhee
Nucleic Acids Res. 2001 January 1; 29(1): 102–105.
PMCID: PMC29827
The ARKdb: genome databases for farmed and other animals
Jian Hu, Chris Mungall, Andy Law, Richard Papworth, J. Paul Nelson, Alison Brown, Irene Simpson, Shirley Leckie, David W. Burt, Alan L. Hillyard, and Alan L. Archibald
Nucleic Acids Res. 2001 January 1; 29(1): 106–110.
PMCID: PMC29807
PlantsP: a functional genomics database for plant phosphorylation
Michael Gribskov, Fariba Fana, Jeffrey Harper, Debra A. Hope, Alice C. Harmon, Douglas W. Smith, Frans E. Tax, and Guangfa Zhang
Nucleic Acids Res. 2001 January 1; 29(1): 111–113.
PMCID: PMC29854
The Medicago Genome Initiative: a model legume database
Callum J. Bell, Richard A. Dixon, Andrew D. Farmer, Raul Flores, Jeff Inman, Robert A. Gonzales, Maria J. Harrison, Nancy L. Paiva, Angela D. Scott, Jennifer W. Weller, and Gregory D. May
Nucleic Acids Res. 2001 January 1; 29(1): 114–117.
PMCID: PMC29836
Mendel, a database of nomenclature for sequenced plant genes
Carl A. Price and Ellen M. Reardon
Nucleic Acids Res. 2001 January 1; 29(1): 118–119.
PMCID: PMC29857
Mendel-GFDb and Mendel-ESTS: databases of plant gene families and ESTs annotated with gene family numbers and gene family names
David Lonsdale, Mark Crowe, Benjamin Arnold, and Benedict C. Arnold
Nucleic Acids Res. 2001 January 1; 29(1): 120–122.
PMCID: PMC29835
The Comprehensive Microbial Resource
Jeremy D. Peterson, Lowell A. Umayam, Tanja Dickinson, Erin K. Hickey, and Owen White
Nucleic Acids Res. 2001 January 1; 29(1): 123–125.
PMCID: PMC29848
Genomes OnLine Database (GOLD): a monitor of genome projects world-wide
Axel Bernal, Uy Ear, and Nikos Kyrpides
Nucleic Acids Res. 2001 January 1; 29(1): 126–127.
PMCID: PMC29859
GOBASE: the organelle genome database
Nelli Shimko, Lin Liu, B. Franz Lang, and Gertraud Burger
Nucleic Acids Res. 2001 January 1; 29(1): 128–132.
PMCID: PMC29812
VIDA: a virus database system for the organization of animal virus genome open reading frames
M. Mar Albà, David Lee, Frances M. G. Pearl, Adrian J. Shepherd, Nigel Martin, Christine A. Orengo, and Paul Kellam
Nucleic Acids Res. 2001 January 1; 29(1): 133–136.
PMCID: PMC29831
RefSeq and LocusLink: NCBI gene-centered resources
Kim D. Pruitt and Donna R. Maglott
Nucleic Acids Res. 2001 January 1; 29(1): 137–140.
PMCID: PMC29787
A comprehensive BAC resource
Shaying Zhao
Nucleic Acids Res. 2001 January 1; 29(1): 141–143.
PMCID: PMC29824
GenMapDB: a database of mapped human BAC clones
Michael Morley, Melissa Arcaro, Joshua Burdick, Raluca Yonescu, Thomas Reid, Ilan R. Kirsch, and Vivian G. Cheung
Nucleic Acids Res. 2001 January 1; 29(1): 144–147.
PMCID: PMC29809
trEST, trGEN and Hits: access to databases of predicted protein sequences
Marco Pagni, Christian Iseli, Thomas Junier, Laurent Falquet, Victor Jongeneel, and Philipp Bucher
Nucleic Acids Res. 2001 January 1; 29(1): 148–151.
PMCID: PMC29852
The Stanford Microarray Database
Gavin Sherlock, Tina Hernandez-Boussard, Andrew Kasarskis, Gail Binkley, John C. Matese, Selina S. Dwight, Miroslava Kaloper, Shuai Weng, Heng Jin, Catherine A. Ball, Michael B. Eisen, Paul T. Spellman, Patrick O. Brown, David Botstein, and J. Michael Cherry
Nucleic Acids Res. 2001 January 1; 29(1): 152–155.
PMCID: PMC29818
BodyMap incorporated PCR-based expression profiling data and a gene ranking system
Jun Sese, Hitoshi Nikaidou, Shoko Kawamoto, Yuichi Minesaki, Shinichi Morishita, and Kousaku Okubo
Nucleic Acids Res. 2001 January 1; 29(1): 156–158.
PMCID: PMC29776
The TIGR Gene Indices: analysis of gene transcript sequences in highly sampled eukaryotic species
John Quackenbush, Jennifer Cho, Daniel Lee, Feng Liang, Ingeborg Holt, Svetlana Karamycheva, Babak Parvizi, Geo Pertea, Razvan Sultana, and Joseph White
Nucleic Acids Res. 2001 January 1; 29(1): 159–164.
PMCID: PMC29813
RHdb: the Radiation Hybrid database
Patricia Rodriguez-Tomé and Philip Lijnzaad
Nucleic Acids Res. 2001 January 1; 29(1): 165–166.
PMCID: PMC29765
PLMItRNA, a database for mitochondrial tRNA genes and tRNAs in photosynthetic eukaryotes
Fabrizio Damiano, Raffaele Gallerani, Sabino Liuni, Flavio Licciulli, and Luigi R. Ceci
Nucleic Acids Res. 2001 January 1; 29(1): 167–168.
PMCID: PMC29786
SRPDB (Signal Recognition Particle Database)
Jan Gorodkin, Bjarne Knudsen, Christian Zwieb, and Tore Samuelsson
Nucleic Acids Res. 2001 January 1; 29(1): 169–170.
PMCID: PMC29779
tmRDB (tmRNA database)
Bjarne Knudsen, Jacek Wower, Christian Zwieb, and Jan Gorodkin
Nucleic Acids Res. 2001 January 1; 29(1): 171–172.
PMCID: PMC29773
The RDP-II (Ribosomal Database Project)
Bonnie L. Maidak, James R. Cole, Timothy G. Lilburn, Charles T. Parker, Paul R. Saxman, Ryan J. Farris, George M. Garrity, Gary J. Olsen, Thomas M. Schmidt, and James M. Tiedje
Nucleic Acids Res. 2001 January 1; 29(1): 173–174.
PMCID: PMC29785
The European Large Subunit Ribosomal RNA Database
Jan Wuyts, Peter De Rijk, Yves Van de Peer, Tina Winkelmans, and Rupert De Wachter
Nucleic Acids Res. 2001 January 1; 29(1): 175–177.
PMCID: PMC29789
RISSC: a novel database for ribosomal 16S–23S RNA genes spacer regions
Jesús García-Martínez, Ignacio Bescós, Jesús Javier Rodríguez-Sala, and Francisco Rodríguez-Valera
Nucleic Acids Res. 2001 January 1; 29(1): 178–180.
PMCID: PMC29764
rrndb: the Ribosomal RNA Operon Copy Number Database
Joel A. Klappenbach, Paul R. Saxman, James R. Cole, and Thomas M. Schmidt
Nucleic Acids Res. 2001 January 1; 29(1): 181–184.
PMCID: PMC29826
HUNT: launch of a full-length cDNA database from the Helix Research Institute
Henrik T. Yudate, Makiko Suwa, Ryotaro Irie, Hiroshi Matsui, Tetsuo Nishikawa, Yoshitaka Nakamura, Daisuke Yamaguchi, Zhang Zhi Peng, Tomoyuki Yamamoto, Keiichi Nagai, Koji Hayashi, Tetsuji Otsuki, Tomoyasu Sugiyama, Toshio Ota, Yutaka Suzuki, Sumio Sugano, Takao Isogai, and Yasuhiko Masuho
Nucleic Acids Res. 2001 January 1; 29(1): 185–188.
PMCID: PMC29790
The non-coding RNAs as riboregulators
Volker A. Erdmann, Miroslawa Z. Barciszewska, Maciej Szymanski, Abraham Hochberg, Nathan de Groot, and Jan Barciszewski
Nucleic Acids Res. 2001 January 1; 29(1): 189–193.
PMCID: PMC29806
PseudoBase: structural information on RNA pseudoknots
F. H. D. van Batenburg, A. P. Gultyaev, and C. W. A. Pleij
Nucleic Acids Res. 2001 January 1; 29(1): 194–195.
PMCID: PMC29770
HyPaLib: a database of RNAs and RNA structural elements defined by hybrid patterns
Stefan Gräf, Dirk Strothmann, Stefan Kurtz, and Gerhard Steger
Nucleic Acids Res. 2001 January 1; 29(1): 196–198.
PMCID: PMC29855
The RESID Database of protein structure modifications and the NRL-3D Sequence–Structure Database
John S. Garavelli, Zhenglin Hou, Nagarajan Pattabiraman, and Robert M. Stephens
Nucleic Acids Res. 2001 January 1; 29(1): 199–201.
PMCID: PMC29832
The emotif database
Jimmy Y. Huang and Douglas L. Brutlag
Nucleic Acids Res. 2001 January 1; 29(1): 202–204.
PMCID: PMC29837
Kabat Database and its applications: future directions
George Johnson and Tai Te Wu
Nucleic Acids Res. 2001 January 1; 29(1): 205–206.
PMCID: PMC29771
IMGT, the international ImMunoGeneTics database
Marie-Paule Lefranc
Nucleic Acids Res. 2001 January 1; 29(1): 207–209.
PMCID: PMC29797
IMGT/HLA Database—a sequence database for the human major histocompatibility complex
James Robinson, Matthew J. Waller, Peter Parham, Julia G. Bodmer, and Steven G. E. Marsh
Nucleic Acids Res. 2001 January 1; 29(1): 210–213.
PMCID: PMC29780
The PDB data uniformity project
T. N. Bhat, Philip Bourne, Zukang Feng, Gary Gilliland, Shri Jain, Veerasamy Ravichandran, Bohdan Schneider, Kata Schneider, Narmada Thanki, Helge Weissig, John Westbrook, and Helen M. Berman
Nucleic Acids Res. 2001 January 1; 29(1): 214–218.
PMCID: PMC29799
PDB-REPRDB: a database of representative protein chains from the Protein Data Bank (PDB)
Tamotsu Noguchi, Hideo Matsuda, and Yutaka Akiyama
Nucleic Acids Res. 2001 January 1; 29(1): 219–220.
PMCID: PMC29793
PDBsum: summaries and analyses of PDB structures
Roman A. Laskowski
Nucleic Acids Res. 2001 January 1; 29(1): 221–222.
PMCID: PMC29784
A rapid classification protocol for the CATH Domain Database to support structural genomics
Frances M. G. Pearl, Nigel Martin, James E. Bray, Daniel W. A. Buchan, Andrew P. Harrison, David Lee, Gabrielle A. Reeves, Adrian J. Shepherd, Ian Sillitoe, Annabel E. Todd, Janet M. Thornton, and Christine A. Orengo
Nucleic Acids Res. 2001 January 1; 29(1): 223–227.
PMCID: PMC29791
A database and tools for 3-D protein structure comparison and alignment using the Combinatorial Extension (CE) algorithm
Ilya N. Shindyalov and Philip E. Bourne
Nucleic Acids Res. 2001 January 1; 29(1): 228–229.
PMCID: PMC29823
NTDB: Thermodynamic Database for Nucleic Acids
Wing Lok Abe Kurtz Chiu, Chun Ngai Sze, Lai Nang Ip, Sze Ki Chan, and Steve Chik Fun Au-Yeung
Nucleic Acids Res. 2001 January 1; 29(1): 230–233.
PMCID: PMC29845
STACK: Sequence Tag Alignment and Consensus Knowledgebase
Alan Christoffels, Antoine van Gelder, Gary Greyling, Robert Miller, Tania Hide, and Winston Hide
Nucleic Acids Res. 2001 January 1; 29(1): 234–238.
PMCID: PMC29830
DIP: The Database of Interacting Proteins: 2001 update
Ioannis Xenarios, Esteban Fernandez, Lukasz Salwinski, Xiaoqun Joyce Duan, Michael J. Thompson, Edward M. Marcotte, and David Eisenberg
Nucleic Acids Res. 2001 January 1; 29(1): 239–241.
PMCID: PMC29798
BIND—The Biomolecular Interaction Network Database
Gary D. Bader, Ian Donaldson, Cheryl Wolting, B. F. Francis Ouellette, Tony Pawson, and Christopher W. V. Hogue
Nucleic Acids Res. 2001 January 1; 29(1): 242–245.
PMCID: PMC29820
ARED: human AU-rich element-containing mRNA database reveals an unexpectedly diverse functional repertoire of encoded proteins
Tala Bakheet, Mathias Frevel, Bryan R. G. Williams, William Greer, and Khalid S. A. Khabar
Nucleic Acids Res. 2001 January 1; 29(1): 246–254.
PMCID: PMC29778
SpliceDB: database of canonical and non-canonical mammalian splice sites
M. Burset, I. A. Seledtsov, and V. V. Solovyev
Nucleic Acids Res. 2001 January 1; 29(1): 255–259.
PMCID: PMC29840
AsMamDB: an alternative splice database of mammals
Hongkai Ji, Qing Zhou, Fang Wen, Huiyu Xia, Xin Lu, and Yanda Li
Nucleic Acids Res. 2001 January 1; 29(1): 260–263.
PMCID: PMC29817
RECODE: a database of frameshifting, bypassing and codon redefinition utilized for gene expression
Pavel V. Baranov, Olga L. Gurvich, Olivier Fayet, Marie Françoise Prère, W. Allen Miller, Raymond F. Gesteland, John F. Atkins, and Michael C. Giddings
Nucleic Acids Res. 2001 January 1; 29(1): 264–267.
PMCID: PMC29850
REBASE—restriction enzymes and methylases
Richard J. Roberts and Dana Macelis
Nucleic Acids Res. 2001 January 1; 29(1): 268–269.
PMCID: PMC29853
MethDB—a public database for DNA methylation data
Christoph Grunau, Eric Renault, André Rosenthal, and Gérard Roizes
Nucleic Acids Res. 2001 January 1; 29(1): 270–274.
PMCID: PMC29842
The imprinted gene and parent-of-origin effect database
Ian M. Morison, Croydon J. Paton, and Susan D. Cleverley
Nucleic Acids Res. 2001 January 1; 29(1): 275–276.
PMCID: PMC29803
PromEC: An updated database of Escherichia coli mRNA promoters with experimentally identified transcriptional start sites
Ruti Hershberg, Gill Bejerano, Alberto Santos-Zavaleta, and Hanah Margalit
Nucleic Acids Res. 2001 January 1; 29(1): 277.
PMCID: PMC29777
DBTBS: a database of Bacillus subtilis promoters and transcription factors
Takahiro Ishii, Ken-ichi Yoshida, Goro Terai, Yasutaro Fujita, and Kenta Nakai
Nucleic Acids Res. 2001 January 1; 29(1): 278–280.
PMCID: PMC29858
The TRANSFAC system on gene expression regulation
E. Wingender, X. Chen, E. Fricke, R. Geffers, R. Hehl, I. Liebich, M. Krull, V. Matys, H. Michael, R. Ohnhäuser, M. Prüß, F. Schacherer, S. Thiele, and S. Urbach
Nucleic Acids Res. 2001 January 1; 29(1): 281–283.
PMCID: PMC29801
ACTIVITY: a database on DNA/RNA sites activity adapted to apply sequence-activity relationships from one system to another
Julia V. Ponomarenko, Dagmara P. Furman, Anatoly S. Frolov, Nikolay L. Podkolodny, Galina V. Orlova, Mikhail P. Ponomarenko, Nikolay A. Kolchanov, and Akinori Sarai
Nucleic Acids Res. 2001 January 1; 29(1): 284–287.
PMCID: PMC29829
Aminoacyl-tRNA synthetases database
Maciej Szymanski, Marzanna A. Deniziak, and Jan Barciszewski
Nucleic Acids Res. 2001 January 1; 29(1): 288–290.
PMCID: PMC29805
The Homeodomain Resource: sequences, structures, DNA binding sites and genomic information
Sharmila Banerjee-Basu, Daniel W. Sink, and Andreas D. Baxevanis
Nucleic Acids Res. 2001 January 1; 29(1): 291–293.
PMCID: PMC29851
LGICdb: the ligand-gated ion channel database
Nicolas Le Novère and Jean-Pierre Changeux
Nucleic Acids Res. 2001 January 1; 29(1): 294–295.
PMCID: PMC29772
Human Immunodeficiency Virus Reverse Transcriptase and Protease Sequence Database: an expanded data model integrating natural language text and sequence analysis programs
Rami Kantor, Rhoderick Machekano, Mathew J. Gonzales, Kathryn Dupnik, Jonathan M. Schapiro, and Robert W. Shafer
Nucleic Acids Res. 2001 January 1; 29(1): 296–299.
PMCID: PMC29795
OrCGDB: a database of genes involved in oral cancer
Alan E. Levine and David L. Steffen
Nucleic Acids Res. 2001 January 1; 29(1): 300–302.
PMCID: PMC29839
Atlas of Genetics and Cytogenetics in Oncology and Haematology, updated
Jean-Loup Huret, Philippe Dessen, and Alain Bernheim
Nucleic Acids Res. 2001 January 1; 29(1): 303–304.
PMCID: PMC29834
HC Forum®: a web site based on an international human cytogenetic database
Olivier Cohen, Marie-Ange Mermet, and Jacques Demongeot
Nucleic Acids Res. 2001 January 1; 29(1): 305–307.
PMCID: PMC29821
dbSNP: the NCBI database of genetic variation
S. T. Sherry, M.-H. Ward, M. Kholodov, J. Baker, L. Phan, E. M. Smigielski, and K. Sirotkin
Nucleic Acids Res. 2001 January 1; 29(1): 308–311.
PMCID: PMC29783
rSNP_Guide, a database system for analysis of transcription factor binding to target sequences: application to SNPs and site-directed mutations
Julia V. Ponomarenko, Tatyana I. Merkulova, Gennady V. Vasiliev, Zoya B. Levashova, Galina V. Orlova, Sergey V. Lavryushev, Oleg N. Fokin, Mikhail P. Ponomarenko, Anatoly S. Frolov, and Akinori Sarai
Nucleic Acids Res. 2001 January 1; 29(1): 312–316.
PMCID: PMC29847
ALFRED: an allele frequency database for diverse populations and DNA polymorphisms—an update
Michael V. Osier, Kei-Hoi Cheung, Judith R. Kidd, Andrew J. Pakstis, Perry L. Miller, and Kenneth K. Kidd
Nucleic Acids Res. 2001 January 1; 29(1): 317–319.
PMCID: PMC29769
STRBase: a short tandem repeat DNA database for the human identity testing community
Christian M. Ruitberg, Dennis J. Reeder, and John M. Butler
Nucleic Acids Res. 2001 January 1; 29(1): 320–322.
PMCID: PMC29767
BAliBASE (Benchmark Alignment dataBASE): enhancements for repeats, transmembrane sequences and circular permutations
Anne Bahr, Julie D. Thompson, J.-C. Thierry, and Olivier Poch
Nucleic Acids Res. 2001 January 1; 29(1): 323–326.
PMCID: PMC29792
The KMDB/MutationView: a mutation database for human disease genes
Shinsei Minoshima, Susumu Mitsuyama, Masafumi Ohtsubo, Takashi Kawamura, Sachiko Ito, Sayumi Shibamoto, Fumiaki Ito, and Nobuyoshi Shimizu
Nucleic Acids Res. 2001 January 1; 29(1): 327–328.
PMCID: PMC29856
CKAAPs DB: a conserved key amino acid positions database
Wilfred W. Li, Boojala V. B. Reddy, Ilya N. Shindyalov, and Philip E. Bourne
Nucleic Acids Res. 2001 January 1; 29(1): 329–331.
PMCID: PMC29811
GlycoSuiteDB: a new curated relational database of glycoprotein glycan structures and their biological sources
Catherine A. Cooper, Mathew J. Harrison, Marc R. Wilkins, and Nicolle H. Packer
Nucleic Acids Res. 2001 January 1; 29(1): 332–335.
PMCID: PMC29828
The life sciences Global Image Database (GID)
Eduardo Gonzalez-Couto, Brian Hayes, and Anne Danckaert
Nucleic Acids Res. 2001 January 1; 29(1): 336–339.
PMCID: PMC29843
The University of Minnesota Biocatalysis/Biodegradation Database: emphasizing enzymes
Lynda B. M. Ellis, C. Douglas Hershberger, Edward M. Bryan, and Lawrence P. Wackett
Nucleic Acids Res. 2001 January 1; 29(1): 340–343.
PMCID: PMC29774
ICB database: the gyrB database for identification and classification of bacteria
Kanako Watanabe, James Nelson, Shigeaki Harayama, and Hiroaki Kasai
Nucleic Acids Res. 2001 January 1; 29(1): 344–345.
PMCID: PMC29849
Collecting and harvesting biological data: the GPCRDB and NucleaRDB information systems
Florence Horn, Gerrit Vriend, and Fred E. Cohen
Nucleic Acids Res. 2001 January 1; 29(1): 346–349.
PMCID: PMC29816
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