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ORCIDNucleic Acids Research, Volume 38
Volume 38, Number Database-Issue, January 2010
- Guy Cochrane
, Michael Y. Galperin:
The 2010 Nucleic Acids Research Database Issue and online Database Collection: a community of data resources. 1-4 - Eric W. Sayers, Tanya Barrett, Dennis A. Benson, Evan Bolton, Stephen H. Bryant, Kathi Canese, Vyacheslav Chetvernin, Deanna M. Church, Michael DiCuccio, Scott Federhen, Michael Feolo, Lewis Y. Geer, Wolfgang Helmberg, Yuri Kapustin, David Landsman, David J. Lipman, Zhiyong Lu, Thomas L. Madden, Tom Madej, Donna R. Maglott, Aron Marchler-Bauer, Vadim Miller, Ilene Mizrachi, James Ostell, Anna R. Panchenko, Kim D. Pruitt, Gregory D. Schuler, Edwin Sequeira, Stephen T. Sherry, Martin Shumway, Karl Sirotkin, Douglas J. Slotta, Alexandre Souvorov, Grigory Starchenko, Tatiana A. Tatusova, Lukas Wagner, Yanli Wang, W. John Wilbur, Eugene Yaschenko, Jian Ye:
Database resources of the National Center for Biotechnology Information. 5-16 - Catherine Brooksbank, Graham Cameron, Janet M. Thornton:
The European Bioinformatics Institute's data resources. 17-25 - Yukiko Yamazaki, Ryo Akashi, Yutaka Banno, Takashi Endo, Hiroshi Ezura, Kaoru Fukami-Kobayashi, Kazuo Inaba, Tadashi Isa, Katsuhiko Kamei, Fumie Kasai, Masatomo Kobayashi, Nori Kurata, Makoto Kusaba, Tetsuro Matuzawa, Shohei Mitani, Taro Nakamura, Yukio Nakamura, Norio Nakatsuji, Kiyoshi Naruse, Hironori Niki, Eiji Nitasaka, Yuichi Obata, Hitoshi Okamoto, Moriya Okuma, Kazuhiro Sato, Tadao Serikawa, Toshihiko Shiroishi, Hideaki Sugawara, Hideko Urushibara, Masatoshi Yamamoto, Yoshio Yaoita, Atsushi Yoshiki, Yuji Kohara:
NBRP databases: databases of biological resources in Japan. 26-32 - Eli Kaminuma, Jun Mashima, Yuichi Kodama, Takashi Gojobori, Osamu Ogasawara, Kousaku Okubo, Toshihisa Takagi, Yasukazu Nakamura:
DDBJ launches a new archive database with analytical tools for next-generation sequence data. 33-38 - Rasko Leinonen, Ruth Akhtar, Ewan Birney, James K. Bonfield, Lawrence Bower, Matthew Corbett, Ying Cheng, Fehmi Demiralp, Nadeem Faruque, Neil Goodgame, Richard Gibson, Gemma Hoad, Christopher I. Hunter, Mikyung Jang, Steven Leonard, Quan Lin, Rodrigo Lopez, Michael Maguire, Hamish McWilliam, Sheila Plaister, Rajesh Radhakrishnan, Siamak Sobhany, Guy Slater, Petra ten Hoopen, Franck Valentin, Robert Vaughan, Vadim Zalunin, Daniel R. Zerbino, Guy Cochrane:
Improvements to services at the European Nucleotide Archive. 39-45 - Dennis A. Benson, Ilene Karsch-Mizrachi, David J. Lipman, James Ostell, Eric W. Sayers:
GenBank. 46-51 - Weizhong Li, Hamish McWilliam, Ana Richart de la Torre, Adam Grodowski, Irina Benediktovich, Mickael Goujon, Stephane Nauche, Rodrigo Lopez:
Non-redundant patent sequence databases with value-added annotations at two levels. 52-56 - Raphaël Leplae, Gipsi Lima-Mendez, Ariane Toussaint:
ACLAME: A CLAssification of Mobile genetic Elements, update 2010. 57-61 - Pryavahiny Kichenaradja, Patricia Siguier, Jocelyne Pérochon, Michael Chandler:
ISbrowser: an extension of ISfinder for visualizing insertion sequences in prokaryotic genomes. 62-68 - Michaël Bekaert, Andrew E. Firth, Yan Zhang, Vadim N. Gladyshev, John F. Atkins, Pavel V. Baranov:
Recode-2: new design, new search tools, and many more genes. 69-74 - Giorgio Grillo, Antonio Turi, Flavio Licciulli, Flavio Mignone, Sabino Liuni, Sandro Banfi, Vincenzo Alessandro Gennarino, David Stephen Horner, Giulio Pavesi, Ernesto Picardi, Graziano Pesole:
UTRdb and UTRsite (RELEASE 2010): a collection of sequences and regulatory motifs of the untranslated regions of eukaryotic mRNAs. 75-80 - Pora Kim, Suhyeon Yoon, Namshin Kim, Sanghyun Lee, Minjeong Ko, Haeseung Lee, Hyunjung Kang, Jaesang Kim, Sanghyuk Lee:
ChimerDB 2.0 - a knowledgebase for fusion genes updated. 81-85 - Jun-ichi Takeda, Yutaka Suzuki, Ryuichi Sakate, Yoshiharu Sato, Takashi Gojobori, Tadashi Imanishi, Sumio Sugano:
H-DBAS: human-transcriptome database for alternative splicing: update 2010. 86-90 - Bruno Contreras-Moreira:
3D-footprint: a database for the structural analysis of protein-DNA complexes. 91-97 - Riu Yamashita, Hiroyuki Wakaguri, Sumio Sugano, Yutaka Suzuki, Kenta Nakai:
DBTSS provides a tissue specific dynamic view of Transcription Start Sites. 98-104 - Elodie Portales-Casamar, Supat Thongjuea, Andrew T. Kwon, David J. Arenillas, Xiaobei Zhao, Eivind Valen, Dimas Yusuf, Boris Lenhard, Wyeth W. Wasserman, Albin Sandelin:
JASPAR 2010: the greatly expanded open-access database of transcription factor binding profiles. 105-110 - Pavel S. Novichkov, Olga N. Laikova, Elena S. Novichkova, Mikhail S. Gelfand, Adam P. Arkin, Inna Dubchak, Dmitry A. Rodionov:
RegPrecise: a database of curated genomic inferences of transcriptional regulatory interactions in prokaryotes. 111-118 - Juan Wang, Ming Lu, Chengxiang Qiu, Qinghua Cui:
TransmiR: a transcription factor-microRNA regulation database. 119-122 - Jian-Hua Yang, Peng Shao, Hui Zhou, Yue-Qin Chen, Liang-Hu Qu:
deepBase: a database for deeply annotating and mining deep sequencing data. 123-130 - Martin Mokrejs, Tomás Masek, Václav Vopálenský, Petr Hlubucek, Philippe Delbos, Martin Pospísek:
IRESite - a tool for the examination of viral and cellular internal ribosome entry sites. 131-136 - Panagiotis Alexiou, Thanasis Vergoulis, Martin Gleditzsch, George Prekas, Theodore Dalamagas, Molly Megraw, Ivo Grosse, Timos K. Sellis, Artemis G. Hatzigeorgiou:
miRGen 2.0: a database of microRNA genomic information and regulation. 137-141 - The Universal Protein Resource (UniProt) in 2010. 142-148
- Yan Zhang, Jie Lv, Hongbo Liu, Jiang Zhu, Jianzhong Su, Qiong Wu, Yunfeng Qi, Fang Wang, Xia Li:
HHMD: the human histone modification database. 149-154 - Jian Ren, Zexian Liu, Xinjiao Gao, Changjiang Jin, Mingliang Ye, Hanfa Zou, Longping Wen, Zhaolei Zhang, Yu Xue, Xuebiao Yao:
MiCroKit 3.0: an integrated database of midbody, centrosome and kinetochore. 155-160 - Christian J. A. Sigrist, Lorenzo Cerutti, Edouard De Castro, Petra S. Langendijk-Genevaux, Virginie Bulliard, Amos Bairoch, Nicolas Hulo:
PROSITE, a protein domain database for functional characterization and annotation. 161-166 - Cathryn M. Gould, Francesca Diella, Allegra Via, Pål Puntervoll, Christine Gemünd, Sophie Chabanis-Davidson, Sushama Michael, Ahmed Sayadi, Jan Christian Bryne, Claudia Chica, Markus Seiler, Norman E. Davey, Niall J. Haslam, Robert J. Weatheritt, Aidan Budd, Tim Hughes, Jakub Pas, Leszek Rychlewski, Gilles Travé, Rein Aasland, Manuela Helmer-Citterich, Rune Linding, Toby J. Gibson:
ELM: the status of the 2010 eukaryotic linear motif resource. 167-180 - Annalisa Marsico, Kerstin Scheubert, Anne Tuukkanen, Andreas Henschel, Christof Winter, Rainer Winnenburg, Michael Schroeder:
MeMotif: a database of linear motifs in α-helical transmembrane proteins. 181-189 - Jean Muller, Damian Szklarczyk, Philippe Julien, Ivica Letunic, Alexander Roth, Michael Kuhn, Sean Powell, Christian von Mering, Tobias Doerks, Lars Juhl Jensen, Peer Bork:
eggNOG v2.0: extending the evolutionary genealogy of genes with enhanced non-supervised orthologous groups, species and functional annotations. 190-195 - Gabriel Östlund, Thomas Schmitt, Kristoffer Forslund, Tina Köstler, David N. Messina, Sanjit Roopra, Oliver Frings, Erik L. L. Sonnhammer:
InParanoid 7: new algorithms and tools for eukaryotic orthology analysis. 196-203 - Huaiyu Mi, Qing Dong, Anushya Muruganujan, Pascale Gaudet, Suzanna Lewis, Paul D. Thomas:
PANTHER version 7: improved phylogenetic trees, orthologs and collaboration with the Gene Ontology Consortium. 204-210 - Robert D. Finn, Jaina Mistry, John G. Tate, Penny C. Coggill, Andreas Heger, Joanne E. Pollington, O. Luke Gavin, Prasad Gunasekaran, Goran Ceric, Kristoffer Forslund, Liisa Holm, Erik L. L. Sonnhammer, Sean R. Eddy, Alex Bateman:
The Pfam protein families database. 211-222 - Thomas Rattei, Patrick Tischler, Stefan Götz, Marc-André Jehl, Jonathan Hoser, Roland Arnold, Ana Conesa, Hans-Werner Mewes:
SIMAP - a comprehensive database of pre-calculated protein sequence similarities, domains, annotations and clusters. 223-226 - Neil D. Rawlings, Alan J. Barrett, Alex Bateman:
MEROPS: the peptidase database. 227-233 - Richard J. Roberts, Tamas Vincze, Janos Posfai, Dana Macelis:
REBASE - a database for DNA restriction and modification: enzymes, genes and genomes. 234-236 - Saskia Preissner, Katharina Kroll, Mathias Dunkel, Christian Senger, Gady Goldsobel, Daniel Kuzman, Stefan Günther, Rainer Winnenburg, Michael Schroeder, Robert Preissner:
SuperCYP: a comprehensive database on Cytochrome P450 enzymes including a tool for analysis of CYP-drug interactions. 237-243 - Andreas Schlicker, Mario Albrecht:
FunSimMat update: new features for exploring functional similarity. 244-248 - Paula de Matos, Rafael Alcántara, Adriano Dekker, Marcus Ennis, Janna Hastings, Kenneth Haug, Inmaculada Spiteri, Steve Turner, Christoph Steinbeck:
Chemical Entities of Biological Interest: an update. 249-254 - Yanli Wang, Evan Bolton, Svetlana Dracheva, Karen Karapetyan, Benjamin A. Shoemaker, Tugba O. Suzek, Jiyao Wang, Jewen Xiao, Jian Zhang, Stephen H. Bryant:
An overview of the PubChem BioAssay resource. 255-266 - Guohui Zheng, Andrew V. Colasanti, Xiang-Jun Lu, Wilma K. Olson:
3DNALandscapes: a database for exploring the conformational features of DNA. 267-274 - Christian Koetschan, Frank Förster, Alexander Keller, Tina Schleicher, Benjamin Ruderisch, Roland Schwarz, Tobias Müller, Matthias Wolf, Jörg Schultz:
The ITS2 Database III - sequences and structures for phylogeny. 275-279 - Douglas H. Turner, David H. Mathews:
NNDB: the nearest neighbor parameter database for predicting stability of nucleic acid secondary structure. 280-282 - Michail Yu. Lobanov, Benjamin A. Shoemaker, Sergiy O. Garbuzynskiy, Jessica H. Fong, Anna R. Panchenko, Oxana V. Galzitskaya:
ComSin: database of protein structures in bound (complex) and unbound (single) states in relation to their intrinsic disorder. 283-287 - Yan Yuan Tseng, Z. Jeffrey Chen, Wen-Hsiung Li:
fPOP: footprinting functional pockets of proteins by comparative spatial patterns. 288-295 - Jonathan G. Lees, Corin Yeats, Oliver Redfern, Andrew B. Clegg, Christine A. Orengo:
Gene3D: merging structure and function for a Thousand genomes. 296-300 - François Ehrenmann, Quentin Kaas, Marie-Paule Lefranc:
IMGT/3Dstructure-DB and IMGT/DomainGapAlign: a database and a tool for immunoglobulins or antibodies, T cell receptors, MHC, IgSF and MhcSF. 301-307 - Samir S. Velankar, Christoph Best, B. Beuth, Harry Boutselakis, N. Cobley, Alan W. Sousa da Silva, Dimitris Dimitropoulos, Adel Golovin, Miriam Hirshberg, Melford John, Evgeny B. Krissinel, Richard H. Newman, Thomas J. Oldfield, Anne Pajon, Christopher J. Penkett, Jorge Pineda-Castillo, Gaurav Sahni, Sanchayita Sen, Robert A. Slowley, Antonio Suarez-Uruena, Jawahar Swaminathan, Glen van Ginkel, Wim F. Vranken, Kim Henrick, Gerard J. Kleywegt:
PDBe: Protein Data Bank in Europe. 308-317 - Sven Griep, Uwe Hobohm:
PDBselect 1992-2009 and PDBfilter-select. 318-319 - Donald S. Berkholz, Peter B. Krenesky, John R. Davidson, P. Andrew Karplus:
Protein Geometry Database: a flexible engine to explore backbone conformations and their relationships to covalent geometry. 320-325 - Patrick May, Annika Kreuchwig, Thomas Steinke, Ina Koch:
PTGL: a database for secondary structure-based protein topologies. 326-330 - The Gene Ontology in 2010: extensions and refinements. 331-335
- Johannes Goll, Robert Montgomery, Lauren M. Brinkac, Seth A. Schobel, Derek M. Harkins, Yinong Sebastian, Susmita Shrivastava, A. Scott Durkin, Granger G. Sutton:
The Protein Naming Utility: a rules database for protein nomenclature. 336-339 - Tanja Davidsen, Erin Beck, Anuradha Ganapathy, Robert Montgomery, Nikhat Zafar, Qi Yang, Ramana Madupu, Phil Goetz, Kevin Galinsky, Owen White, Granger G. Sutton:
The comprehensive microbial resource. 340-345 - Konstantinos Liolios, I-Min A. Chen, Konstantinos Mavrommatis, Nektarios Tavernarakis, Philip Hugenholtz, Victor M. Markowitz, Nikos Kyrpides:
The Genomes On Line Database (GOLD) in 2009: status of genomic and metagenomic projects and their associated metadata. 346-354 - Minoru Kanehisa, Susumu Goto, Miho Furumichi, Mao Tanabe, Mika Hirakawa:
KEGG for representation and analysis of molecular networks involving diseases and drugs. 355-360 - Ikuo Uchiyama, Toshio Higuchi, Mikihiko Kawai:
MBGD update 2010: toward a comprehensive resource for exploring microbial genome diversity. 361-365 - Lubos Klucar, Matej Stano, Matus Hajduk:
phiSITE: database of gene regulation in bacteriophages. 366-370 - J. Pellet, Lionel Tafforeau, M. Lucas-Hourani, Vincent Navratil, Laurène Meyniel, Guillaume Achaz, A. Guironnet-Paquet, A. Aublin-Gex, Grégory Caignard, P. Cassonnet, A. Chaboud, T. Chantier, A. Deloire, C. Demeret, M. Le Breton, Gregory Neveu, L. Jacotot, Vaglio Vaglio, Stéphane Delmotte, Christian Gautier, Christophe Combet, Gilbert Deléage, M. Favre, F. Tangy, Yves Jacob, Patrice André, Vincent Lotteau, Chantal Rabourdin-Combe, P. O. Vidalain:
ViralORFeome: an integrated database to generate a versatile collection of viral ORFs. 371-378 - Mitsuteru Nakao, Shinobu Okamoto, Mitsuyo Kohara, Tsunakazu Fujishiro, Takatomo Fujisawa, Shusei Sato, Satoshi Tabata, Takakazu Kaneko, Yasukazu Nakamura:
CyanoBase: the cyanobacteria genome database update 2010. 379-381 - Victor M. Markowitz, I-Min A. Chen, Krishna Palaniappan, Ken Chu, Ernest Szeto, Yuri Grechkin, Anna Ratner, Iain Anderson, Athanasios Lykidis, Konstantinos Mavrommatis, Natalia Ivanova, Nikos Kyrpides:
The integrated microbial genomes system: an expanding comparative analysis resource. 382-390 - Renzo Kottmann, Ivaylo Kostadinov, Melissa Beth Duhaime, Pier Luigi Buttigieg, Pelin Yilmaz, Wolfgang Hankeln, Jost Waldmann, Frank Oliver Glöckner:
Megx.net: integrated database resource for marine ecological genomics. 391-395 - Paramvir S. Dehal, Marcin P. Joachimiak, Morgan N. Price, John T. Bates, Jason K. Baumohl, Dylan Chivian, Greg D. Friedland, Katherine H. Huang, Keith Keller, Pavel S. Novichkov, Inna Dubchak, Eric J. Alm, Adam P. Arkin:
MicrobesOnline: an integrated portal for comparative and functional genomics. 396-400 - Luke E. Ulrich, Igor B. Zhulin:
The MiST2 database: a comprehensive genomics resource on microbial signal transduction. 401-407 - Lauren M. Brinkac, Tanja Davidsen, Erin Beck, Anuradha Ganapathy, Elisabet Caler, Robert J. Dodson, A. Scott Durkin, Derek M. Harkins, Hernan Lorenzi, Ramana Madupu, Yinong Sebastian, Susmita Shrivastava, Mathangi Thiagarajan, Joshua Orvis, Jaideep P. Sundaram, Jonathan Crabtree, Kevin Galens, Yongmei Zhao, Jason M. Inman, Robert Montgomery, Seth A. Schobel, Kevin Galinsky, David M. Tanenbaum, Adam Resnick, Nikhat Zafar, Owen White, Granger G. Sutton:
Pathema: a clade-specific bioinformatics resource center for pathogen research. 408-414 - Cristina Aurrecoechea, John Brestelli, Brian P. Brunk, Steve Fischer, Bindu Gajria, Xin Gao, Alan R. Gingle, Gregory R. Grant, Omar S. Harb, Mark Heiges, Frank Innamorato, John Iodice, Jessica C. Kissinger, Eileen T. Kraemer, Wei Li, John A. Miller, Vishal Nayak, Cary Pennington, Deborah F. Pinney, David S. Roos, Chris Ross, Ganesh Srinivasamoorthy, Christian J. Stoeckert Jr., Ryan Thibodeau, Charles Treatman, Haiming Wang:
EuPathDB: a portal to eukaryotic pathogen databases. 415-419 - Martha B. Arnaud, Marcus C. Chibucos, Maria C. Costanzo, Jonathan Crabtree, Diane O. Inglis, Adil Lotia, Joshua Orvis, Prachi Shah, Marek S. Skrzypek, Gail Binkley, Stuart R. Miyasato, Jennifer R. Wortman, Gavin Sherlock:
The Aspergillus Genome Database, a curated comparative genomics resource for gene, protein and sequence information for the Aspergillus research community. 420-427 - Marek S. Skrzypek, Martha B. Arnaud, Maria C. Costanzo, Diane O. Inglis, Prachi Shah, Gail Binkley, Stuart R. Miyasato, Gavin Sherlock:
New tools at the Candida Genome Database: biochemical pathways and full-text literature search. 428-432 - Stacia R. Engel, Rama Balakrishnan, Gail Binkley, Karen R. Christie, Maria C. Costanzo, Selina S. Dwight, Dianna G. Fisk, Jodi E. Hirschman, Benjamin C. Hitz, Eurie L. Hong, Cynthia J. Krieger, Michael S. Livstone, Stuart R. Miyasato, Robert S. Nash, Rose Oughtred, Julie Park, Marek S. Skrzypek, Shuai Weng, Edith D. Wong, Kara Dolinski, David Botstein, J. Michael Cherry:
Saccharomyces Genome Database provides mutant phenotype data. 433-436 - Hee Shin Kim, Terence Murphy, Jing Xia, Doina Caragea, Yoonseong Park, Richard W. Beeman, Marcé D. Lorenzen, Stephen Butcher, J. Robert Manak, Susan J. Brown:
BeetleBase in 2010: revisions to provide comprehensive genomic information for Tribolium castaneum. 437-442 - Ulrike Pfreundt, Daniel P. James, Susan Tweedie, Derek Wilson, Sarah A. Teichmann, Boris Adryan:
FlyTF: improved annotation and enhanced functionality of the Drosophila transcription factor database. 443-447 - Moritz Gilsdorf, Thomas Horn, Zeynep Arziman, Oliver Pelz, Evgeny Kiner, Michael Boutros:
GenomeRNAi: a database for cell-based RNAi phenotypes. 2009 update. 448-452 - Jun Duan, Ruiqiang Li, Daojun Cheng, Wei Fan, Xingfu Zha, Tingcai Cheng, Yuqian Wu, Jun Wang, Kazuei Mita, Zhonghuai Xiang, Qingyou Xia:
SilkDB v2.0: a platform for silkworm (Bombyx mori ) genome biology. 453-456 - Martin Aslett, Cristina Aurrecoechea, Matthew Berriman, John Brestelli, Brian P. Brunk, Mark Carrington, Daniel P. Depledge, Steve Fischer, Bindu Gajria, Xin Gao, Malcolm J. Gardner, Alan R. Gingle, Gregory R. Grant, Omar S. Harb, Mark Heiges, Christiane Hertz-Fowler, Robin Houston, Frank Innamorato, John Iodice, Jessica C. Kissinger, Eileen T. Kraemer, Wei Li, Flora J. Logan, John A. Miller, Siddhartha Mitra, Peter J. Myler, Vishal Nayak, Cary Pennington, Isabelle Phan, Deborah F. Pinney, Gowthaman Ramasamy, Matthew B. Rogers, David S. Roos, Chris Ross, Dhileep Sivam, Deborah F. Smith, Ganesh Srinivasamoorthy, Christian J. Stoeckert Jr., Sandhya Subramanian, Ryan Thibodeau, Adrian Tivey, Charles Treatman, Giles Velarde, Haiming Wang:
TriTrypDB: a functional genomic resource for the Trypanosomatidae. 457-462 - Todd W. Harris, Igor Antoshechkin, Tamberlyn Bieri, Darin Blasiar, Juancarlos Chan, Wen J. Chen, Norie De La Cruz, Paul Davis, Margaret J. Duesbury, Ruihua Fang, Jolene Fernandes, Michael Han, Ranjana Kishore, Raymond Y. N. Lee, Hans-Michael Müller, Cecilia Nakamura, Philip Ozersky, Andrei Petcherski, Arun Rangarajan, Anthony Rogers, Gary Schindelman, Erich M. Schwarz, Mary Ann Tuli, Kimberly Van Auken, Daniel Wang, Xiaodong Wang, Gary Williams, Karen Yook, Richard Durbin, Lincoln D. Stein, John Spieth, Paul W. Sternberg:
WormBase: a comprehensive resource for nematode research. 463-467 - Vineet K. Sharma, Naveen Kumar, Tulika Prakash, Todd D. Taylor:
MetaBioME: a database to explore commercially useful enzymes in metagenomic datasets. 468-472 - Ron Caspi, Tomer Altman, Joseph M. Dale, Kate Dreher, Carol A. Fulcher, Fred Gilham, Pallavi Kaipa, Athikkattuvalasu S. Karthikeyan, Anamika Kothari, Markus Krummenacker, Mario Latendresse, Lukas A. Mueller, Suzanne M. Paley, Liviu Popescu, Anuradha Pujar, Alexander Glennon Shearer, Peifen Zhang, Peter D. Karp:
The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases. 473-479 - Alex Frolkis, Craig Knox, Emilia Lim, Timothy Jewison, Vivian Law, David D. Hau, Philip Liu, Bijaya Gautam, Son Ly, Anchi Guo, Jianguo Xia, Yongjie Liang, Savita Shrivastava, David S. Wishart:
SMPDB: The Small Molecule Pathway Database. 480-487 - Junfeng Gao, Lynda B. M. Ellis, Lawrence P. Wackett:
The University of Minnesota Biocatalysis/Biodegradation Database: improving public access. 488-491 - Lewis Y. Geer, Aron Marchler-Bauer, Renata C. Geer, Lianyi Han, Jane He, Siqian He, Chunlei Liu, Wenyao Shi, Stephen H. Bryant:
The NCBI BioSystems database. 492-496 - Andreas Ruepp, Brigitte Waegele, Martin Lechner, Barbara Brauner, Irmtraud Dunger-Kaltenbach, Gisela Fobo, Goar Frishman, Corinna Montrone, Hans-Werner Mewes:
CORUM: the comprehensive resource of mammalian protein complexes - 2009. 497-501 - Judice L. Y. Koh, Huiming Ding, Michael Costanzo, Anastasia Baryshnikova, Kiana Toufighi, Gary D. Bader, Chad L. Myers, Brenda J. Andrews, Charles Boone:
DRYGIN: a database of quantitative genetic interaction networks in yeast. 502-507 - Milana Frenkel-Morgenstern, Ariel A. Cohen, Naama Geva-Zatorsky, Eran Eden, Jaime Prilusky, Irina Issaeva, Alex Sigal, Cellina Cohen-Saidon, Yuvalal Liron, Lydia Cohen, Tamar Danon, Natalie Perzov, Uri Alon:
Dynamic Proteomics: a database for dynamics and localizations of endogenous fluorescently-tagged proteins in living human cells. 508-512 - Petras J. Kundrotas, Zhengwei Zhu, Ilya A. Vakser:
GWIDD: Genome-wide protein docking database. 513-517 - Benjamin A. Shoemaker, Dachuan Zhang, Ratna R. Thangudu, Manoj Tyagi, Jessica H. Fong, Aron Marchler-Bauer, Stephen H. Bryant, Tom Madej, Anna R. Panchenko:
Inferred Biomolecular Interaction Server - a web server to analyze and predict protein interacting partners and binding sites. 518-524 - Bruno Aranda, P. Achuthan, Yasmin Alam-Faruque, Irina M. Armean, Alan J. Bridge, C. Derow, Marc Feuermann, A. T. Ghanbarian, Samuel Kerrien, Jyoti Khadake, Jules Kerssemakers, C. Leroy, Michael P. Menden, Magali Michaut, Luisa Montecchi-Palazzi, S. N. Neuhauser, Sandra E. Orchard, V. Perreau, Bernd Roechert, K. van Eijk, Henning Hermjakob:
The IntAct molecular interaction database in 2010. 525-531 - Arnaud Céol, Andrew Chatr-aryamontri, Luana Licata, Daniele Peluso, Leonardo Briganti, Livia Perfetto, Luisa Castagnoli, Gianni Cesareni:
MINT, the molecular interaction database: 2009 update. 532-539 - Pawel Smialowski, Philipp Pagel, Philip Wong, Barbara Brauner, Irmtraud Dunger, Gisela Fobo, Goar Frishman, Corinna Montrone, Thomas Rattei, Dmitrij Frishman, Andreas Ruepp:
The Negatome database: a reference set of non-interacting protein pairs. 540-544 - Peter Vanhee, Joke Reumers, Francois Stricher, Lies Baeten, Luis Serrano, Joost Schymkowitz, Frederic Rousseau:
PepX: a structural database of non-redundant protein-peptide complexes. 545-551 - Michael Kuhn, Damian Szklarczyk, Andrea Franceschini, Monica Campillos, Christian von Mering, Lars Juhl Jensen, Andreas Beyer, Peer Bork:
STITCH 2: an interaction network database for small molecules and proteins. 552-556 - Paul Flicek, Bronwen L. Aken, Benoît Ballester, Kathryn Beal, Eugene Bragin, Simon Brent, Yuan Chen, Peter Clapham, Guy Coates, Susan Fairley, Stephen Fitzgerald, Julio Fernandez-Banet, Leo Gordon, Stefan Gräf, Syed Haider, Martin Hammond, Kerstin Howe, Andrew M. Jenkinson, Nathan Johnson, Andreas Kähäri, Damian Keefe, Stephen Keenan, Rhoda Kinsella, Felix Kokocinski, Gautier Koscielny, Eugene Kulesha, Daniel Lawson, Ian Longden, Tim Massingham, William M. McLaren, Karine Megy, Bert Overduin, Bethan Pritchard, Daniel Rios, Magali Ruffier, Michael Schuster, Guy Slater, Damian Smedley, Giulietta Spudich, Y. Amy Tang, Stephen J. Trevanion, Albert J. Vilella, Jan Vogel, Simon White, Steven P. Wilder, Amonida Zadissa, Ewan Birney, Fiona Cunningham, Ian Dunham, Richard Durbin, Xosé M. Fernández-Suárez, Javier Herrero, Tim J. P. Hubbard, Anne Parker, Glenn Proctor, James A. Smith, Stephen M. J. Searle:
Ensembl's 10th year. 557-562 - Paul J. Kersey, Daniel Lawson, Ewan Birney, Paul S. Derwent, Matthias Haimel, Javier Herrero, Stephen Keenan, Arnaud Kerhornou, Gautier Koscielny, Andreas Kähäri, Rhoda Kinsella, Eugene Kulesha, Uma Maheswari, Karine Megy, Michael Nuhn, Glenn Proctor, Daniel M. Staines, Franck Valentin, Albert J. Vilella, Andy Yates:
Ensembl Genomes: Extending Ensembl across the taxonomic space. 563-569 - Phil Wilkinson, Jitka Sengerova, Raffaele Matteoni, Chao-Kung Chen, Gaetan Soulat, Abel Ureta-Vidal, Sabine Fessele, Michael Hagn, Marzia Massimi, Karen Pickford, Richard H. Butler, Susan Marschall, Ann-Marie Mallon, Amanda J. Pickard, Marcello Raspa, Ferdinando Scavizzi, Martin Fray, Vanessa Larrigaldie, Johan Leyritz, Ewan Birney, Glauco P. Tocchini-Valentini, Steve D. M. Brown, Yann Herault, Lluis Montoliu, Martin Hrabé de Angelis, Damian Smedley:
EMMA - mouse mutant resources for the international scientific community. 570-576 - Hugh Morgan, Tim Beck, Andrew Blake, Hilary Gates, Niels C. Adams, Guillaume Debouzy, Sophie Leblanc, Christoph Lengger, Holger Maier, David G. Melvin, Hamid Meziane, Dave Richardson, Sara Wells, Jacqui White, Joe Wood, Martin Hrabé de Angelis, Steve D. M. Brown, John M. Hancock, Ann-Marie Mallon:
EuroPhenome: a repository for high-throughput mouse phenotyping data. 577-585 - Carol J. Bult, James A. Kadin, Joel E. Richardson, Judith A. Blake, Janan T. Eppig:
The Mouse Genome Database: enhancements and updates. 586-592 - Andrew Blake, Karen Pickford, Simon Greenaway, Steve Thomas, Amanda J. Pickard, Christine M. Williamson, Niels C. Adams, Alison Walling, Tim Beck, Martin Fray, Jo Peters, Tom Weaver, Steve D. M. Brown, John M. Hancock, Ann-Marie Mallon:
MouseBook: an integrated portal of mouse resources. 593-599 - Keiko Akagi, Robert M. Stephens, Jingfeng Li, Evgenji Evdokimov, Michael R. Kuehn, Natalia Volfovsky, David E. Symer:
MouseIndelDB: a database integrating genomic indel polymorphisms that distinguish mouse strains. 600-606