SISYPHUS--structural alignments for proteins with non-trivial relationships (English)
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- New search for: Andreeva, Antonina
- New search for: Prlic, Andreas
- New search for: Hubbard, Tim J. P.
- New search for: Murzin, Alexey G.
- New search for: Andreeva, Antonina
- New search for: Prlic, Andreas
- New search for: Hubbard, Tim J. P.
- New search for: Murzin, Alexey G.
In:
Nucleic acids research
;
35
, suppl_1
;
D253-
;
2007
- Article (Journal) / Electronic Resource
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Title:SISYPHUS--structural alignments for proteins with non-trivial relationships
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Contributors:Andreeva, Antonina ( author ) / Prlic, Andreas ( author ) / Hubbard, Tim J. P. ( author ) / Murzin, Alexey G. ( author )
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Published in:Nucleic acids research ; 35, suppl_1 ; D253-
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Publisher:
- New search for: Oxford University Press
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Publication date:2007-01-12
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ISSN:
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DOI:
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Type of media:Article (Journal)
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Type of material:Electronic Resource
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Language:English
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Source:
Table of contents – Volume 35, Issue suppl_1
The tables of contents are generated automatically and are based on the data records of the individual contributions available in the index of the TIB portal. The display of the Tables of Contents may therefore be incomplete.
- 287
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GlycoMapsDB: a database of the accessible conformational space of glycosidic linkagesFrank, M. / Lütteke, T. / von der Lieth, C.-W. et al. | 2007
- D1
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EDITORIALBatemen, Alex et al. | 2007
- D3
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The Molecular Biology Database Collection: 2007 updateGalperin, Michael Y. et al. | 2007
- D5
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Database resources of the National Center for Biotechnology InformationWheeler, David L. / Barrett, Tanya / Benson, Dennis A. / Bryant, Stephen H. / Canese, Kathi / Chetvernin, Vyacheslav / Church, Deanna M. / DiCuccio, Michael / Edgar, Ron / Federhen, Scott et al. | 2007
- D13
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DDBJ working on evaluation and classification of bacterial genes in INSDCSugawara, Hideaki / Abe, Takashi / Gojobori, Takashi / Tateno, Yoshio et al. | 2007
- D16
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EMBL Nucleotide Sequence Database in 2006Kulikova, Tamara / Akhtar, Ruth / Aldebert, Philippe / Althorpe, Nicola / Andersson, Mikael / Baldwin, Alastair / Bates, Kirsty / Bhattacharyya, Sumit / Bower, Lawrence / Browne, Paul et al. | 2007
- D21
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GenBankBenson, Dennis A. / Karsch-Mizrachi, Ilene / Lipman, David J. / Ostell, James / Wheeler, David L. et al. | 2007
- D26
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Entrez Gene: gene-centered information at NCBIMaglott, Donna / Ostell, Jim / Pruitt, Kim D. / Tatusova, Tatiana et al. | 2007
- D32
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Developments in CORG: a gene-centric comparative genomics resourceDieterich, C. / Franz, M. W. / Vingron, M. et al. | 2007
- D36
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InSatDb: a microsatellite database of fully sequenced insect genomesArchak, Sunil / Meduri, Eshwar / Kumar, P. Sravana / Nagaraju, J. et al. | 2007
- D40
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OriDB: a DNA replication origin databaseNieduszynski, Conrad A. / Hiraga, Shin-ichiro / Ak, Prashanth / Benham, Craig J. / Donaldson, Anne D. et al. | 2007
- D47
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Patome: a database server for biological sequence annotation and analysis in issued patents and published patent applicationsLee, Byungwook / Kim, Taehyung / Kim, Seon-Kyu / Lee, Kwang H. / Lee, Doheon et al. | 2007
- D51
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PolymiRTS Database: linking polymorphisms in microRNA target sites with complex traitsBao, Lei / Zhou, Mi / Wu, Ligang / Lu, Lu / Goldowitz, Dan / Williams, Robert W. / Cui, Yan et al. | 2007
- D55
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Pseudogene.org: a comprehensive database and comparison platform for pseudogene annotationKarro, John E. / Yan, Yangpan / Zheng, Deyou / Zhang, Zhaolei / Carriero, Nicholas / Cayting, Philip / Harrrison, Paul / Gerstein, Mark et al. | 2007
- D61
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NCBI reference sequences (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteinsPruitt, Kim D. / Tatusova, Tatiana / Maglott, Donna R. et al. | 2007
- D66
-
RetrOryza: a database of the rice LTR-retrotransposonsChaparro, Cristian / Guyot, Romain / Zuccolo, Andrea / Piégu, Benoît / Panaud, Olivier et al. | 2007
- D71
-
SNPSTR: a database of compound microsatellite-SNP markersAgrafioti, I. / Stumpf, M. P. H. et al. | 2007
- D76
-
SGDB: a database of synthetic genes re-designed for optimizing protein over-expressionWu, Gang / Zheng, Yuanpu / Qureshi, Imran / Zin, Htar Thant / Beck, Tyler / Bulka, Blazej / Freeland, Stephen J. et al. | 2007
- D80
-
TRDB--The Tandem Repeats DatabaseGelfand, Yevgeniy / Rodriguez, Alfredo / Benson, Gary et al. | 2007
- D88
-
VISTA Enhancer Browser--a database of tissue-specific human enhancersVisel, Axel / Minovitsky, Simon / Dubchak, Inna / Pennacchio, Len A. et al. | 2007
- D93
-
The ASAP II database: analysis and comparative genomics of alternative splicing in 15 animal speciesKim, Namshin / Alekseyenko, Alexander V. / Roy, Meenakshi / Lee, Christopher et al. | 2007
- D99
-
ECgene: an alternative splicing database updateLee, Yeunsook / Lee, Younghee / Kim, Bumjin / Shin, Youngah / Nam, Seungyoon / Kim, Pora / Kim, Namshin / Chung, Won-Hyong / Kim, Jaesang / Lee, Sanghyuk et al. | 2007
- D104
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H-DBAS: Alternative splicing database of completely sequenced and manually annotated full-length cDNAs based on H-InvitationalTakeda, Jun-ichi / Suzuki, Yutaka / Nakao, Mitsuteru / Kuroda, Tsuyoshi / Sugano, Sumio / Gojobori, Takashi / Imanishi, Tadashi et al. | 2007
- D110
-
U12DB: a database of orthologous U12-type spliceosomal intronsAlioto, Tyler S. et al. | 2007
- D116
-
GenomeTrafac: a whole genome resource for the detection of transcription factor binding site clusters associated with conventional and microRNA encoding genes conserved between mouse and human gene orthologsJegga, Anil G. / Chen, Jing / Gowrisankar, Sivakumar / Deshmukh, Mrunal A. / Gudivada, RangaChandra / Kong, Sue / Kaimal, Vivek / Aronow, Bruce J. et al. | 2007
- D122
-
PReMod: a database of genome-wide mammalian cis-regulatory module predictionsFerretti, Vincent / Poitras, Christian / Bergeron, Dominique / Coulombe, Benoit / Robert, François / Blanchette, Mathieu et al. | 2007
- D127
-
SwissRegulon: a database of genome-wide annotations of regulatory sitesPachkov, Mikhail / Erb, Ionas / Molina, Nacho / van Nimwegen, Erik et al. | 2007
- D132
-
Tractor_DB (version 2.0): a database of regulatory interactions in gamma-proteobacterial genomesPérez, Abel González / Angarica, Vladimir Espinosa / Vasconcelos, Ana Tereza R. / Collado-Vides, Julio et al. | 2007
- D137
-
TRED: a transcriptional regulatory element database, new entries and other developmentJiang, C. / Xuan, Z. / Zhao, F. / Zhang, M. Q. et al. | 2007
- D141
-
dbRES: a web-oriented database for annotated RNA editing sitesHe, Tao / Du, Pufeng / Li, Yanda et al. | 2007
- D145
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fRNAdb: a platform for mining/annotating functional RNA candidates from non-coding RNA sequencesKin, Taishin / Yamada, Kouichirou / Terai, Goro / Okida, Hiroaki / Yoshinari, Yasuhiko / Ono, Yukiteru / Kojima, Aya / Kimura, Yuki / Komori, Takashi / Asai, Kiyoshi et al. | 2007
- D149
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miRGen: a database for the study of animal microRNA genomic organization and functionMegraw, Molly / Sethupathy, Praveen / Corda, Benoit / Hatzigeorgiou, Artemis G. et al. | 2007
- D156
-
NATsDB: Natural Antisense Transcripts DataBaseZhang, Yong / Li, Jiongtang / Kong, Lei / Gao, Ge / Liu, Qing-Rong / Wei, Liping et al. | 2007
- D162
-
Noncoding RNAs database (ncRNAdb)Szymanski, Maciej / Erdmann, Volker A. / Barciszewski, Jan et al. | 2007
- D165
-
PolyA_DB 2: mRNA polyadenylation sites in vertebrate genesLee, Ju Youn / Yeh, Ijen / Park, Ji Yeon / Tian, Bin et al. | 2007
- D169
-
The ribosomal database project (RDP-II): introducing myRDP space and quality controlled public dataCole, J. R. / Chai, B. / Farris, R. J. / Wang, Q. / Kulam-Syed-Mohideen, A. S. / McGarrell, D. M. / Bandela, A. M. / Cardenas, E. / Garrity, G. M. / Tiedje, J. M. et al. | 2007
- D173
-
REDIdb: the RNA editing databasePicardi, Ernesto / Regina, Teresa Maria Rosaria / Brennicke, Axel / Quagliariello, Carla et al. | 2007
- D178
-
RNAdb 2.0--an expanded database of mammalian non-coding RNAsPang, Ken C. / Stephen, Stuart / Dinger, Marcel E. / Engström, Pär G. / Lenhard, Boris / Mattick, John S. et al. | 2007
- D183
-
Sno/scaRNAbase: a curated database for small nucleolar RNAs and cajal body-specific RNAsXie, Jun / Zhang, Ming / Zhou, Tao / Hua, Xia / Tang, LiSha / Wu, Weilin et al. | 2007
- D188
-
TassDB: a database of alternative tandem splice sitesHiller, Michael / Nikolajewa, Swetlana / Huse, Klaus / Szafranski, Karol / Rosenstiel, Philip / Schuster, Stefan / Backofen, Rolf / Platzer, Matthias et al. | 2007
- D193
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The Universal Protein Resource (UniProt)The UniProt Consortium, et al. | 2007
- D198
-
BindingDB: a web-accessible database of experimentally determined protein-ligand binding affinitiesLiu, Tiqing / Lin, Yuhmei / Wen, Xin / Jorissen, Robert N. / Gilson, Michael K. et al. | 2007
- D202
-
PIDD: database for Protein Inter-atomic Distance DistributionsWu, Di / Cui, Feng / Jernigan, Robert / Wu, Zhijun et al. | 2007
- D208
-
eSLDB: eukaryotic subcellular localization databasePierleoni, Andea / Martelli, Pier Luigi / Fariselli, Piero / Casadio, Rita et al. | 2007
- D213
-
SUBA: the Arabidopsis Subcellular DatabaseHeazlewood, Joshua L. / Verboom, Robert E. / Tonti-Filippini, Julian / Small, Ian / Millar, A. Harvey et al. | 2007
- D219
-
FireDB--a database of functionally important residues from proteins of known structureLopez, Gonzalo / Valencia, A. / Tress, M. et al. | 2007
- D224
-
New developments in the InterPro databaseMulder, Nicola J. / Apweiler, Rolf / Attwood, Teresa K. / Bairoch, Amos / Bateman, Alex / Binns, David / Bork, Peer / Buillard, Virginie / Cerutti, Lorenzo / Copley, Richard et al. | 2007
- D229
-
Phospho3D: a database of three-dimensional structures of protein phosphorylation sitesZanzoni, Andreas / Ausiello, Gabriele / Via, Allegra / Gherardini, Pier Federico / Helmer-Citterich, Manuela et al. | 2007
- D232
-
A Protein Classification Benchmark collection for machine learningSonego, Paolo / Pacurar, Mircea / Dhir, Somdutta / Kertész-Farkas, Attila / Kocsor, András / Gáspári, Zoltán / Leunissen, Jack A.M. / Pongor, Sándor et al. | 2007
- D237
-
CDD: a conserved domain database for interactive domain family analysisMarchler-Bauer, Aron / Anderson, John B. / Derbyshire, Myra K. / DeWeese-Scott, Carol / Gonzales, Noreen R. / Gwadz, Marc / Hao, Luning / He, Siqian / Hurwitz, David I. / Jackson, John D. et al. | 2007
- D241
-
EVEREST: a collection of evolutionary conserved protein domainsPortugaly, Elon / Linial, Nathan / Linial, Michal et al. | 2007
- D247
-
PANTHER version 6: protein sequence and function evolution data with expanded representation of biological pathwaysMi, Huaiyu / Guo, Nan / Kejariwal, Anish / Thomas, Paul D. et al. | 2007
- D253
-
SISYPHUS--structural alignments for proteins with non-trivial relationshipsAndreeva, Antonina / Prlic, Andreas / Hubbard, Tim J. P. / Murzin, Alexey G. et al. | 2007
- D260
-
TIGRFAMs and Genome Properties: tools for the assignment of molecular function and biological process in prokaryotic genomesSelengut, Jeremy D. / Haft, Daniel H. / Davidsen, Tanja / Ganapathy, Anurhada / Gwinn-Giglio, Michelle / Nelson, William C. / Richter, Alexander R. / White, Owen et al. | 2007
- D265
-
Defensins knowledgebase: a manually curated database and information source focused on the defensins family of antimicrobial peptidesSeebah, Shalin / Suresh, Anita / Zhuo, Shaowei / Choong, Yong How / Chua, Hazel / Chuon, Danny / Beuerman, Roger / Verma, Chandra et al. | 2007
- D269
-
REBASE--enzymes and genes for DNA restriction and modificationRoberts, Richard J. / Vincze, Tamas / Posfai, Janos / Macelis, Dana et al. | 2007
- D271
-
Sentra: a database of signal transduction proteins for comparative genome analysisD'Souza, Mark / Glass, Elizabeth M. / Syed, Mustafa H. / Zhang, Yi / Rodriguez, Alexis / Maltsev, Natalia / Galperin, Michael Y. et al. | 2007
- D274
-
TransportDB: a comprehensive database resource for cytoplasmic membrane transport systems and outer membrane channelsRen, Qinghu / Chen, Kaixi / Paulsen, Ian T. et al. | 2007
- D280
-
Sharing of worldwide distributed carbohydrate-related digital resources: online connection of the Bacterial Carbohydrate Structure DataBase and GLYCOSCIENCES.deToukach, Philip / Joshi, Hiren J / Ranzinger, René / Knirel, Yuri / von der Lieth, Claus-W. et al. | 2007
- D291
-
The CATH domain structure database: new protocols and classification levels give a more comprehensive resource for exploring evolutionGreene, Lesley H. / Lewis, Tony E. / Addou, Sarah / Cuff, Alison / Dallman, Tim / Dibley, Mark / Redfern, Oliver / Pearl, Frances / Nambudiry, Rekha / Reid, Adam et al. | 2007
- D298
-
MMDB: annotating protein sequences with Entrez's 3D-structure databaseWang, Yanli / Addess, Kenneth J. / Chen, Jie / Geer, Lewis Y. / He, Jane / He, Siqian / Lu, Shennan / Madej, Thomas / Marchler-Bauer, Aron / Thiessen, Paul A. et al. | 2007
- D301
-
The worldwide Protein Data Bank (wwPDB): ensuring a single, uniform archive of PDB dataBerman, Helen / Henrick, Kim / Nakamura, Haruki / Markley, John L. et al. | 2007
- D304
-
Protein Folding Database (PFD 2.0): an online environment for the International Foldeomics ConsortiumFulton, Kate F. / Bate, Mark A. / Faux, Noel G. / Mahmood, Khalid / Betts, Chris / Buckle, Ashley M. et al. | 2007
- D308
-
The SUPERFAMILY database in 2007: families and functionsWilson, Derek / Madera, Martin / Vogel, Christine / Chothia, Cyrus / Gough, Julian et al. | 2007
- D314
-
TMBETA-GENOME: database for annotated {beta}-barrel membrane proteins in genomic sequencesGromiha, M. Michael / Yabuki, Yukimitsu / Kundu, Srinesh / Suharnan, Sivasundaram / Suwa, Makiko et al. | 2007
- D317
-
TOPOFIT-DB, a database of protein structural alignments based on the TOPOFIT methodLeslin, Chesley M. / Abyzov, Alexej / Ilyin, Valentin A. et al. | 2007
- D322
-
GO PaD: the Gene Ontology Partition DatabaseAlterovitz, Gil / Xiang, Michael / Mohan, Mamta / Ramoni, Marco F. et al. | 2007
- D328
-
GeneTrees: a phylogenomics resource for prokaryotesTian, Yuying / Dickerman, Allan W. et al. | 2007
- D332
-
Eukaryotic genome size databasesGregory, T. Ryan / Nicol, James A. / Tamm, Heidi / Kullman, Bellis / Kullman, Kaur / Leitch, Ilia J. / Murray, Brian G. / Kapraun, Donald F. / Greilhuber, Johann / Bennett, Michael D. et al. | 2007
- D339
-
Genome Information Broker for Viruses (GIB-V): database for comparative analysis of virus genomesHirahata, Masaki / Abe, Takashi / Tanaka, Naoto / Kuwana, Yoshikazu / Shigemoto, Yasumasa / Miyazaki, Satoru / Suzuki, Yoshiyuki / Sugawara, Hideaki et al. | 2007
- D343
-
MBGD: a platform for microbial comparative genomics based on the automated construction of orthologous groupsUchiyama, Ikuo et al. | 2007
- D347
-
The National Microbial Pathogen Database Resource (NMPDR): a genomics platform based on subsystem annotationMcNeil, Leslie Klis / Reich, Claudia / Aziz, Ramy K. / Bartels, Daniela / Cohoon, Matthew / Disz, Terry / Edwards, Robert A. / Gerdes, Svetlana / Hwang, Kaitlyn / Kubal, Michael et al. | 2007
- D354
-
PEDANT genome database: 10 years onlineRiley, M. Louise / Schmidt, Thorsten / Artamonova, Irena I. / Wagner, Christian / Volz, Andreas / Heumann, Klaus / Mewes, Hans-Werner / Frishman, Dmitrij et al. | 2007
- D358
-
STRING 7--recent developments in the integration and prediction of protein interactionsvon Mering, Christian / Jensen, Lars J. / Kuhn, Michael / Chaffron, Samuel / Doerks, Tobias / Krüger, Beate / Snel, Berend / Bork, Peer et al. | 2007
- D363
-
euHCVdb: the European hepatitis C virus databaseCombet, Christophe / Garnier, Nicolas / Charavay, Céline / Grando, Delphine / Crisan, Daniel / Lopez, Julien / Dehne-Garcia, Alexandre / Geourjon, Christophe / Bettler, Emmanuel / Hulo, Chantal et al. | 2007
- D367
-
HepSEQ: International Public Health Repository for Hepatitis BGnaneshan, Saravanamuttu / Ijaz, Samreen / Moran, Joanne / Ramsay, Mary / Green, Jonathan et al. | 2007
- D371
-
The HIV positive selection mutation databasePan, Calvin / Kim, Joseph / Chen, Lamei / Wang, Qi / Lee, Christopher et al. | 2007
- D376
-
Influenza Virus Database (IVDB): an integrated information resource and analysis platform for influenza virus researchChang, Suhua / Zhang, Jiajie / Liao, Xiaoyun / Zhu, Xinxing / Wang, Dahai / Zhu, Jiang / Feng, Tao / Zhu, Baoli / Gao, George F. / Wang, Jian et al. | 2007
- D381
-
ViTa: prediction of host microRNAs targets on virusesHsu, Paul Wei-Che / Lin, Li-Zen / Hsu, Sheng-Da / Hsu, Justin Bo-Kai / Huang, Hsien-Da et al. | 2007
- D386
-
MiST: a microbial signal transduction databaseUlrich, Luke E. / Zhulin, Igor B. et al. | 2007
- D391
-
MvirDB--a microbial database of protein toxins, virulence factors and antibiotic resistance genes for bio-defence applicationsZhou, C. E. / Smith, J. / Lam, M. / Zemla, A. / Dyer, M. D. / Slezak, T. et al. | 2007
- D395
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Towards pathogenomics: a web-based resource for pathogenicity islandsYoon, Sung Ho / Park, Young-Kyu / Lee, Soohyun / Choi, Doil / Oh, Tae Kwang / Hur, Cheol-Goo / Kim, Jihyun F. et al. | 2007
- D401
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PATRIC: The VBI PathoSystems Resource Integration CenterSnyder, E. E. / Kampanya, N. / Lu, J. / Nordberg, E. K. / Karur, H. R. / Shukla, M. / Soneja, J. / Tian, Y. / Xue, T. / Yoo, H. et al. | 2007
- D407
-
RegTransBase--a database of regulatory sequences and interactions in a wide range of prokaryotic genomesKazakov, Alexei E. / Cipriano, Michael J. / Novichkov, Pavel S. / Minovitsky, Simon / Vinogradov, Dmitry V. / Arkin, Adam / Mironov, Andrey A. / Gelfand, Mikhail S. / Dubchak, Inna et al. | 2007
- D413
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The Sulfolobus databaseBrügger, Kim et al. | 2007
- D416
-
VNTRDB: a bacterial variable number tandem repeat locus databaseChang, Chia-Hung / Chang, Yu-Chung / Underwood, Anthony / Chiou, Chien-Shun / Kao, Cheng-Yan et al. | 2007
- D422
-
Xanthusbase: adapting wikipedia principles to a model organism databaseArshinoff, Bradley I. / Suen, Garret / Just, Eric M. / Merchant, Sohel M. / Kibbe, Warren A. / Chisholm, Rex L. / Welch, Roy D. et al. | 2007
- D427
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ApiDB: integrated resources for the apicomplexan bioinformatics resource centerAurrecoechea, Cristina / Heiges, Mark / Wang, Haiming / Wang, Zhiming / Fischer, Steve / Rhodes, Philippa / Miller, John / Kraemer, Eileen / Stoeckert, Christian J. / Roos, David S. et al. | 2007
- D431
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Comparasite: a database for comparative study of transcriptomes of parasites defined by full-length cDNAsWatanabe, Junichi / Wakaguri, Hiroyuki / Sasaki, Masahide / Suzuki, Yutaka / Sugano, Sumio et al. | 2007
- D439
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ParameciumDB: a community resource that integrates the Paramecium tetraurelia genome sequence with genetic dataArnaiz, Olivier / Cain, Scott / Cohen, Jean / Sperling, Linda et al. | 2007
- D445
-
TBestDB: a taxonomically broad database of expressed sequence tags (ESTs)O'Brien, Emmet A. / Koski, Liisa B. / Zhang, Yue / Yang, LiuSong / Wang, Eric / Gray, Michael W. / Burger, Gertraud / Lang, B. Franz et al. | 2007
- D452
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Sequence resources at the Candida Genome DatabaseArnaud, Martha B. / Costanzo, Maria C. / Skrzypek, Marek S. / Shah, Prachi / Binkley, Gail / Lane, Christopher / Miyasato, Stuart R. / Sherlock, Gavin et al. | 2007
- D457
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The GermOnline cross-species systems browser provides comprehensive information on genes and gene products relevant for sexual reproductionGattiker, Alexandre / Niederhauser-Wiederkehr, Christa / Moore, James / Hermida, Leandro / Primig, Michael et al. | 2007
- D463
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PROPHECY--a yeast phenome database, update 2006Fernandez-Ricaud, Luciano / Warringer, Jonas / Ericson, Elke / Glaab, Kerstin / Davidsson, Pär / Nilsson, Fabian / Kemp, Graham J. L. / Nerman, Olle / Blomberg, Anders et al. | 2007
- D468
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Expanded protein information at SGD: new pages and proteome browserNash, Robert / Weng, Shuai / Hitz, Ben / Balakrishnan, Rama / Christie, Karen R. / Costanzo, Maria C. / Dwight, Selina S. / Engel, Stacia R. / Fisk, Dianna G. / Hirschman, Jodi E. et al. | 2007
- D472
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WormBook: the online review of Caenorhabditis elegans biologyGirard, Lisa R. / Fiedler, Tristan J. / Harris, Todd W. / Carvalho, Felicia / Antoshechkin, Igor / Han, Michael / Sternberg, Paul W. / Stein, Lincoln D. / Chalfie, Martin et al. | 2007
- D476
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BeetleBase: the model organism database for Tribolium castaneumWang, Liangjiang / Wang, Suzhi / Li, Yonghua / Paradesi, Martin S. R. / Brown, Susan J. et al. | 2007
- D480
-
DroSpeGe: rapid access database for new Drosophila species genomesGilbert, Donald G. et al. | 2007
- D486
-
FlyBase: genomes by the dozenCrosby, Madeline A. / Goodman, Joshua L. / Strelets, Victor B. / Zhang, Peili / Gelbart, William M. / The FlyBase Consortium, et al. | 2007
- D492
-
GenomeRNAi: a database for cell-based RNAi phenotypesHorn, Thomas / Arziman, Zeynep / Berger, Juerg / Boutros, Michael et al. | 2007
- D498
-
Pristionchus.org: a genome-centric database of the nematode satellite species Pristionchus pacificusDieterich, Christoph / Roeseler, Waltraud / Sobetzko, Patrick / Sommer, Ralf J. et al. | 2007
- D503
-
VectorBase: a home for invertebrate vectors of human pathogensLawson, Daniel / Arensburger, Peter / Atkinson, Peter / Besansky, Nora J. / Bruggner, Robert V. / Butler, Ryan / Campbell, Kathryn S. / Christophides, George K. / Christley, Scott / Dialynas, Emmanuel et al. | 2007
- D506
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WormBase: new content and better accessBieri, Tamberlyn / Blasiar, Darin / Ozersky, Philip / Antoshechkin, Igor / Bastiani, Carol / Canaran, Payan / Chan, Juancarlos / Chen, Nansheng / Chen, Wen J. / Davis, Paul et al. | 2007
- D511
-
BRENDA, AMENDA and FRENDA: the enzyme information system in 2007Barthelmes, Jens / Ebeling, Christian / Chang, Antje / Schomburg, Ida / Schomburg, Dietmar et al. | 2007
- D515
-
MACiE (Mechanism, Annotation and Classification in Enzymes): novel tools for searching catalytic mechanismsHolliday, Gemma L. / Almonacid, Daniel E. / Bartlett, Gail J. / O'Boyle, Noel M. / Torrance, James W. / Murray-Rust, Peter / Mitchell, John B. O. / Thornton, Janet M. et al. | 2007
- D521
-
HMDB: the Human Metabolome DatabaseWishart, David S. / Tzur, Dan / Knox, Craig / Eisner, Roman / Guo, An Chi / Young, Nelson / Cheng, Dean / Jewell, Kevin / Arndt, David / Sawhney, Summit et al. | 2007
- D527
-
LMSD: LIPID MAPS structure databaseSud, Manish / Fahy, Eoin / Cotter, Dawn / Brown, Alex / Dennis, Edward A. / Glass, Christopher K. / Merrill, Alfred H. / Murphy, Robert C. / Raetz, Christian R. H. / Russell, David W. et al. | 2007
- D533
-
SYSTOMONAS -- an integrated database for systems biology analysis of PseudomonasChoi, Claudia / Münch, Richard / Leupold, Stefan / Klein, Johannes / Siegel, Inga / Thielen, Bernhard / Benkert, Beatrice / Kucklick, Martin / Schobert, Max / Barthelmes, Jens et al. | 2007
- D538
-
CellCircuits: a database of protein network modelsMak, H. Craig / Daly, Mike / Gruebel, Bianca / Ideker, Trey et al. | 2007
- D546
-
CutDB: a proteolytic event databaseIgarashi, Yoshinobu / Eroshkin, Alexey / Gramatikova, Svetlana / Gramatikoff, Kosi / Zhang, Ying / Smith, Jeffrey W. / Osterman, Andrei L. / Godzik, Adam et al. | 2007
- D550
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CYCLONET--an integrated database on cell cycle regulation and carcinogenesisKolpakov, Fedor / Poroikov, Vladimir / Sharipov, Ruslan / Kondrakhin, Yury / Zakharov, Alexey / Lagunin, Alexey / Milanesi, Luciano / Kel, Alexander et al. | 2007
- D557
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DOMINO: a database of domain-peptide interactionsCeol, Arnaud / Chatr-aryamontri, Andrew / Santonico, Elena / Sacco, Roberto / Castagnoli, Luisa / Cesareni, Gianni et al. | 2007
- D561
-
IntAct--open source resource for molecular interaction dataKerrien, S. / Alam-Faruque, Y. / Aranda, B. / Bancarz, I. / Bridge, A. / Derow, C. / Dimmer, E. / Feuermann, M. / Friedrichsen, A. / Huntley, R. et al. | 2007
- D566
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Michigan Molecular Interactions (MiMI): putting the jigsaw puzzle togetherJayapandian, Magesh / Chapman, Adriane / Tarcea, V. Glenn / Yu, Cong / Elkiss, Aaron / Ianni, Angela / Liu, Bin / Nandi, Arnab / Santos, Carlos / Andrews, Philip et al. | 2007
- D572
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MINT: the Molecular INTeraction databaseChatr-aryamontri, Andrew / Ceol, Arnaud / Palazzi, Luisa Montecchi / Nardelli, Giuliano / Schneider, Maria Victoria / Castagnoli, Luisa / Cesareni, Gianni et al. | 2007
- D575
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PROTCOM: searchable database of protein complexes enhanced with domain-domain structuresKundrotas, Petras J. / Alexov, Emil et al. | 2007
- D580
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SNAPPI-DB: a database and API of Structures, iNterfaces and Alignments for Protein-Protein InteractionsJefferson, Emily R. / Walsh, Thomas P. / Roberts, Timothy J. / Barton, Geoffrey J. et al. | 2007
- D590
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UniHI: an entry gate to the human protein interactomeChaurasia, Gautam / Iqbal, Yasir / Hänig, Christian / Herzel, Hanspeter / Wanker, Erich E. / Futschik, Matthias E. et al. | 2007
- D595
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Hedgehog Signaling Pathway Database: a repository of current annotation efforts and resources for the Hh research communityHervold, Kieran / Martin, Andrew / Kirkpatrick, Roger A. / Mc Kenna, Paul F. / Ramirez-Weber, F. A. et al. | 2007
- D599
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AgBase: a unified resource for functional analysis in agricultureMcCarthy, Fiona M. / Bridges, Susan M. / Wang, Nan / Magee, G. Bryce / Williams, W. Paul / Luthe, Dawn S. / Burgess, Shane C. et al. | 2007
- D604
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AnimalQTLdb: a livestock QTL database tool set for positional QTL information mining and beyondHu, Zhi-Liang / Fritz, Eric Ryan / Reecy, James M. et al. | 2007
- D610
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Ensembl 2007Hubbard, T. J. P. / Aken, B. L. / Beal, K. / Ballester, B. / Caccamo, M. / Chen, Y. / Clarke, L. / Coates, G. / Cunningham, F. / Cutts, T. et al. | 2007
- D618
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The mouse Gene Expression Database (GXD): 2007 updateSmith, Constance M. / Finger, Jacqueline H. / Hayamizu, Terry F. / McCright, Ingeborg J. / Eppig, Janan T. / Kadin, James A. / Richardson, Joel E. / Ringwald, Martin et al. | 2007
- D624
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MamPol: a database of nucleotide polymorphism in the Mammalia classEgea, Raquel / Casillas, Sònia / Fernández, Enol / Senar, Miquel Àngel / Barbadilla, Antonio et al. | 2007
- D630
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The mouse genome database (MGD): new features facilitating a model systemEppig, Janan T. / Blake, Judith A. / Bult, Carol J. / Kadin, James A. / Richardson, Joel E. / the Mouse Genome Database Group, et al. | 2007
- D638
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Mouse Tumor Biology Database (MTB): status update and future directionsBegley, Dale A. / Krupke, Debra M. / Vincent, Matthew J. / Sundberg, John P. / Bult, Carol J. / Eppig, Janan T. et al. | 2007
- D643
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Mouse Phenome Database (MPD)Bogue, Molly A. / Grubb, Stephen C. / Maddatu, Terry P. / Bult, Carol J. et al. | 2007
- D650
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PEDE (Pig EST Data Explorer) has been expanded into Pig Expression Data Explorer, including 10 147 porcine full-length cDNA sequencesUenishi, Hirohide / Eguchi-Ogawa, Tomoko / Shinkai, Hiroki / Okumura, Naohiko / Suzuki, Kohei / Toki, Daisuke / Hamasima, Noriyuki / Awata, Takashi et al. | 2007
- D654
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PigGIS: Pig Genomic Informatics SystemRuan, Jue / Guo, Yiran / Li, Heng / Hu, Yafeng / Song, Fei / Huang, Xin / Kristiensen, Karsten / Bolund, Lars / Wang, Jun et al. | 2007
- D658
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The Rat Genome Database, update 2007--Easing the path from disease to data and back againTwigger, Simon N. / Shimoyama, Mary / Bromberg, Susan / Kwitek, Anne E. / Jacob, Howard J. / the RGD Team, et al. | 2007
- D663
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The ENCODE Project at UC Santa CruzThomas, Daryl J. / Rosenbloom, Kate R. / Clawson, Hiram / Hinrichs, Angie S. / Trumbower, Heather / Raney, Brian J. / Karolchik, Donna / Barber, Galt P. / Harte, Rachel A. / Hillman-Jackson, Jennifer et al. | 2007
- D668
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The UCSC genome browser database: update 2007Kuhn, R. M. / Karolchik, D. / Zweig, A. S. / Trumbower, H. / Thomas, D. J. / Thakkapallayil, A. / Sugnet, C. W. / Stanke, M. / Smith, K. E. / Siepel, A. et al. | 2007
- D674
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GeneSpeed: protein domain organization of the transcriptomeKutchma, Alecksandr / Quayum, Nayeem / Jensen, Jan et al. | 2007
- D680
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PlasmID: a centralized repository for plasmid clone information and distributionZuo, Dongmei / Mohr, Stephanie E. / Hu, Yanhui / Taycher, Elena / Rolfs, Andreas / Kramer, Jason / Williamson, Janice / LaBaer, Joshua et al. | 2007
- D685
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D-HaploDB: a database of definitive haplotypes determined by genotyping complete hydatidiform mole samplesHigasa, Koichiro / Miyatake, Katsuyuki / Kukita, Yoji / Tahira, Tomoko / Hayashi, Kenshi et al. | 2007
- D690
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FINDbase: a relational database recording frequencies of genetic defects leading to inherited disorders worldwidevan Baal, Sjozef / Kaimakis, Polynikis / Phommarinh, Manyphong / Koumbi, Daphne / Cuppens, Harry / Riccardino, Francesca / Macek, Milan / Scriver, Charles R. / Patrinos, George P. et al. | 2007
- D696
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PhenomicDB: a new cross-species genotype/phenotype resourceGroth, Philip / Pavlova, Nadia / Kalev, Ivan / Tonov, Spas / Georgiev, Georgi / Pohlenz, Hans-Dieter / Weiss, Bertram et al. | 2007
- D700
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PolyDoms: a whole genome database for the identification of non-synonymous coding SNPs with the potential to impact diseaseJegga, Anil G. / Gowrisankar, Sivakumar / Chen, Jing / Aronow, Bruce J. et al. | 2007
- D707
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Snap: an integrated SNP annotation platformLi, Shengting / Ma, Lijia / Li, Heng / Vang, Søren / Hu, Yafeng / Bolund, Lars / Wang, Jun et al. | 2007
- D711
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SNP@Ethnos: a database of ethnically variant single-nucleotide polymorphismsPark, Jungsun / Hwang, Sohyun / Lee, Yong Seok / Kim, Sang-Cheol / Lee, Doheon et al. | 2007
- D716
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Variation resources at UC Santa CruzThomas, Daryl J. / Trumbower, Heather / Kern, Andrew D. / Rhead, Brooke L. / Kuhn, Robert M. / Haussler, David / Kent, W. James et al. | 2007
- D721
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CancerGenes: a gene selection resource for cancer genome projectsHiggins, Maureen E. / Claremont, Martine / Major, John E. / Sander, Chris / Lash, Alex E. et al. | 2007
- D727
-
OncoDB.HCC: an integrated oncogenomic database of hepatocellular carcinoma revealed aberrant cancer target genes and lociSu, Wen-Hui / Chao, Chuan-Chuan / Yeh, Shiou-Hwei / Chen, Ding-Shinn / Chen, Pei-Jer / Jou, Yuh-Shan et al. | 2007
- D732
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KBERG: KnowledgeBase for Estrogen Responsive GenesTang, Suisheng / Zhang, Zhuo / Tan, Sin Lam / Tang, Man-Hung Eric / Kumar, Arun Prashanth / Ramadoss, Suresh Kumar / Bajic, Vladimir B. et al. | 2007
- D737
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SynDB: a Synapse protein DataBase based on synapse ontologyZhang, Wuxue / Zhang, Yong / Zheng, Hui / Zhang, Chen / Xiong, Wei / Olyarchuk, John G. / Walker, Michael / Xu, Weifeng / Zhao, Min / Zhao, Shuqi et al. | 2007
- D742
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T1DBase: integration and presentation of complex data for type 1 diabetes researchHulbert, Erin M. / Smink, Luc J. / Adlem, Ellen C. / Allen, James E. / Burdick, David B. / Burren, Oliver S. / Cavnor, Christopher C. / Dolman, Geoffrey E. / Flamez, Daisy / Friery, Karen F. et al. | 2007
- D747
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ArrayExpress--a public database of microarray experiments and gene expression profilesParkinson, H. / Kapushesky, M. / Shojatalab, M. / Abeygunawardena, N. / Coulson, R. / Farne, A. / Holloway, E. / Kolesnykov, N. / Lilja, P. / Lukk, M. et al. | 2007
- D751
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EPConDB: a web resource for gene expression related to pancreatic development, beta-cell function and diabetesMazzarelli, Joan M. / Brestelli, John / Gorski, Regina K. / Liu, Junmin / Manduchi, Elisabetta / Pinney, Deborah F. / Schug, Jonathan / White, Peter / Kaestner, Klaus H. / Stoeckert, Christian J. et al. | 2007
- D756
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Gene Aging Nexus: a web database and data mining platform for microarray data on agingPan, Fei / Chiu, Chi-Hsien / Pulapura, Sudip / Mehan, Michael R. / Nunez-Iglesias, Juan / Zhang, Kangyu / Kamath, Kiran / Waterman, Michael S. / Finch, Caleb E. / Zhou, Xianghong Jasmine et al. | 2007
- D760
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NCBI GEO: mining tens of millions of expression profiles--database and tools updateBarrett, Tanya / Troup, Dennis B. / Wilhite, Stephen E. / Ledoux, Pierre / Rudnev, Dmitry / Evangelista, Carlos / Kim, Irene F. / Soboleva, Alexandra / Tomashevsky, Maxim / Edgar, Ron et al. | 2007
- D766
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The Stanford Microarray Database: implementation of new analysis tools and open source release of softwareDemeter, Janos / Beauheim, Catherine / Gollub, Jeremy / Hernandez-Boussard, Tina / Jin, Heng / Maier, Donald / Matese, John C. / Nitzberg, Michael / Wymore, Farrell / Zachariah, Zachariah K. et al. | 2007
- D771
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MAPU: Max-Planck Unified database of organellar, cellular, tissue and body fluid proteomesZhang, Yanling / Zhang, Yong / Adachi, Jun / Olsen, Jesper V. / Shi, Rong / de Souza, Gustavo / Pasini, Erica / Foster, Leonard J. / Macek, Boris / Zougman, Alexandre et al. | 2007
- D780
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The Online Bioinformatics Resources Collection at the University of Pittsburgh Health Sciences Library System--a one-stop gateway to online bioinformatics databases and software toolsChen, Yi-Bu / Chattopadhyay, Ansuman / Bergen, Phillip / Gadd, Cynthia / Tannery, Nancy et al. | 2007
- D786
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DisProt: the Database of Disordered ProteinsSickmeier, Megan / Hamilton, Justin A. / LeGall, Tanguy / Vacic, Vladimir / Cortese, Marc S. / Tantos, Agnes / Szabo, Beata / Tompa, Peter / Chen, Jake / Uversky, Vladimir N. et al. | 2007
- D794
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PharmGED: Pharmacogenetic Effect DatabaseZheng, C. J. / Han, L. Y. / Xie, B. / Liew, C. Y. / Ong, S. / Cui, J. / Zhang, H. L. / Tang, Z. Q. / Gan, S. H. / Jiang, L. et al. | 2007
- D800
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probeBase--an online resource for rRNA-targeted oligonucleotide probes: new features 2007Loy, Alexander / Maixner, Frank / Wagner, Michael / Horn, Matthias et al. | 2007
- D805
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qPrimerDepot: a primer database for quantitative real time PCRCui, Wenwu / Taub, Dennis D. / Gardner, Kevin et al. | 2007
- D810
-
Organelle DB: an updated resource of eukaryotic protein localization and functionWiwatwattana, Nuwee / Landau, Christopher M. / Cope, G. Jamie / Harp, Gabriel A. / Kumar, Anuj et al. | 2007
- D815
-
PeroxisomeDB: a database for the peroxisomal proteome, functional genomics and diseaseSchlüter, Agatha / Fourcade, Stéphane / Domènech-Estévez, Enric / Gabaldón, Toni / Huerta-Cepas, Jaime / Berthommier, Guillaume / Ripp, Raymond / Wanders, Ronald J. A. / Poch, Olivier / Pujol, Aurora et al. | 2007
- D823
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An enhanced MITOMAP with a global mtDNA mutational phylogenyRuiz-Pesini, Eduardo / Lott, Marie T. / Procaccio, Vincent / Poole, Jason C. / Brandon, Marty C. / Mishmar, Dan / Yi, Christina / Kreuziger, James / Baldi, Pierre / Wallace, Douglas C. et al. | 2007
- D829
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CSRDB: a small RNA integrated database and browser resource for cerealsJohnson, Cameron / Bowman, Lewis / Adai, Alex T. / Vance, Vicki / Sundaresan, Venkatesan et al. | 2007
- D834
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MIPSPlantsDB--plant database resource for integrative and comparative plant genome researchSpannagl, Manuel / Noubibou, Octave / Haase, Dirk / Yang, Li / Gundlach, Heidrun / Hindemitt, Tobias / Klee, Kathrin / Haberer, Georg / Schoof, Heiko / Mayer, Klaus F. X. et al. | 2007
- D841
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PathoPlant(R): a platform for microarray expression data to analyze co-regulated genes involved in plant defense responsesBülow, Lorenz / Schindler, Martin / Hehl, Reinhard et al. | 2007
- D846
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The TIGR Plant Transcript Assemblies databaseChilds, Kevin L. / Hamilton, John P. / Zhu, Wei / Ly, Eugene / Cheung, Foo / Wu, Hank / Rabinowicz, Pablo D. / Town, Chris D. / Buell, C. Robin / Chan, Agnes P. et al. | 2007
- D852
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POGs/PlantRBP: a resource for comparative genomics in plantsWalker, Nigel S. / Stiffler, Nicholas / Barkan, Alice et al. | 2007
- D857
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AthaMap web tools for the analysis and identification of co-regulated genesGaluschka, Claudia / Schindler, Martin / Bülow, Lorenz / Hehl, Reinhard et al. | 2007
- D863
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ATTED-II: a database of co-expressed genes and cis elements for identifying co-regulated gene groups in ArabidopsisObayashi, Takeshi / Kinoshita, Kengo / Nakai, Kenta / Shibaoka, Masayuki / Hayashi, Shinpei / Saeki, Motoshi / Shibata, Daisuke / Saito, Kazuki / Ohta, Hiroyuki et al. | 2007
- D870
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BASC: an integrated bioinformatics system for Brassica researchErwin, Timothy A. / Jewell, Erica G. / Love, Christopher G. / Lim, Geraldine A. C. / Li, Xi / Chapman, Ross / Batley, Jacqueline / Stajich, Jason E. / Mongin, Emmanuel / Stupka, Elia et al. | 2007
- D874
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GABI-Kat SimpleSearch: an Arabidopsis thaliana T-DNA mutant database with detailed information for confirmed insertionsLi, Yong / Rosso, Mario G. / Viehoever, Prisca / Weisshaar, Bernd et al. | 2007
- D879
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PlantQTL-GE: a database system for identifying candidate genes in rice and Arabidopsis by gene expression and QTL informationZeng, Huazong / Luo, Lijun / Zhang, Weixiong / Zhou, Jie / Li, Zuofeng / Liu, Hongyan / Zhu, Tiansheng / Feng, Xiangqian / Zhong, Yang et al. | 2007
- D883
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The TIGR Rice Genome Annotation Resource: improvements and new featuresOuyang, Shu / Zhu, Wei / Hamilton, John / Lin, Haining / Campbell, Matthew / Childs, Kevin / Thibaud-Nissen, Françoise / Malek, Renae L. / Lee, Yuandan / Zheng, Li et al. | 2007
- D888
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ForestTreeDB: a database dedicated to the mining of tree transcriptomesPavy, Nathalie / Johnson, James J. / Crow, John A. / Paule, Charles / Kunau, Timothy / MacKay, John / Retzel, Ernest F. et al. | 2007
- D895
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MaizeGDB's new data types, resources and activitiesLawrence, Carolyn J. / Schaeffer, Mary L. / Seigfried, Trent E. / Campbell, Darwin A. / Harper, Lisa C. et al. | 2007
- D901
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TomatEST database: in silico exploitation of EST data to explore expression patterns in tomato speciesD'Agostino, Nunzio / Aversano, Mario / Frusciante, Luigi / Chiusano, Maria Luisa et al. | 2007
- D906
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SuperHapten: a comprehensive database for small immunogenic compoundsGünther, Stefan / Hempel, Dorothea / Dunkel, Mathias / Rother, Kristian / Preissner, Robert et al. | 2007