1: Im eo, Chee W, Lim hj, Bender M, Tsai hm, Yang so, Lee H
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The UCSC Genome Browser Database: update 2006. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D590-8. PMID: 16381938 [PubMed - indexed for MEDLINE]
QTL MatchMaker: a multi-species quantitative trait loci (QTL) database and query system for annotation of genes and QTL. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D586-9. PMID: 16381937 [PubMed - indexed for MEDLINE]
Haendel M, Howe DG, Mani P, Ramachandran S, Schaper K, Segerdell E, Song P, Sprunger B, Taylor S, Van Slyke CE, Westerfield M. The Zebrafish Information Network: the zebrafish model organism database. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D581-5. PMID: 16381936 [PubMed - indexed for MEDLINE] 1425: Li H, Coghlan A, Ruan J, Coin LJ, Heriche JK, Osmotherly L, Li R, Liu T, Zhang Z, Bolund L, Wong GK, Zheng W, Dehal P, Wang J, Durbin R. TreeFam: a curated database of phylogenetic trees of animal gene families. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D572-80. PMID: 16381935 [PubMed - indexed for MEDLINE]
Fobo G, Frishman G, Montrone C, Skornia C, Wanka S, Rattei T, Pagel P, Riley L, Frishman D, Surmeli D, Tetko IV, Oesterheld M, Stumpflen V, Mewes HW. The Mouse Functional Genome Database (MfunGD): functional annotation of proteins in the light of their cellular context. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D568-71. PMID: 16381934 [PubMed - indexed for MEDLINE]
Database Group. The Mouse Genome Database (MGD): updates and enhancements. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D562-7. PMID: 16381933 [PubMed - indexed for MEDLINE]
HOLLYWOOD: a comparative relational database of alternative splicing. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D56-62. PMID: 16381932 [PubMed - indexed for MEDLINE] 1429: Birney E, Andrews D, Caccamo M, Chen Y, Clarke L, Coates G, Cox T, Cunningham F, Curwen V, Cutts T, Down T, Durbin R, Fernandez-Suarez XM, Flicek P, Graf S, Hammond M, Herrero J, Howe K, Iyer V, Jekosch K, Kahari A, Kasprzyk A, Keefe D, Kokocinski F, Kulesha E, London D, Longden I, Melsopp C, Meidl P, Overduin B, Parker A, Proctor G, Prlic A, Rae M, Rios D, Redmond S, Schuster M, Sealy I, Searle S, Severin J, Slater G, Smedley D, Smith J, Stabenau A, Stalker J, Trevanion S, Ureta-Vidal A, Vogel J, White S, Woodwark C, Hubbard TJ. Ensembl 2006. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D556-61. PMID: 16381931 [PubMed - indexed for MEDLINE] 1430: Sierro N, Kusakabe T, Park KJ, Yamashita R, Kinoshita K, Nakai K. DBTGR: a database of tunicate promoters and their regulatory elements. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D552-5. PMID: 16381930 [PubMed - indexed for MEDLINE] 1431: Krull M, Pistor S, Voss N, Kel A, Reuter I, Kronenberg D, Michael H, Schwarzer K, Potapov A, Choi C, Kel-Margoulis O, Wingender E. TRANSPATH: an information resource for storing and visualizing signaling pathways and their pathological aberrations. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D546-51. PMID: 16381929 [PubMed - indexed for MEDLINE] 1432: Potapov A, Liebich I, Donitz J, Schwarzer K, Sasse N, Schoeps T, Crass T, Wingender E. EndoNet: an information resource about endocrine networks. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D540-5. PMID: 16381928 [PubMed - indexed for MEDLINE]
BioGRID: a general repository for interaction datasets. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D535-9. PMID: 16381927 [PubMed - indexed for MEDLINE] 1434: Ng A, Bursteinas B, Gao Q, Mollison E, Zvelebil M. pSTIING: a 'systems' approach towards integrating signalling pathways, interaction and transcriptional regulatory networks in inflammation and cancer. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D527-34. PMID: 16381926 [PubMed - indexed for MEDLINE]
AffinDB: a freely accessible database of affinities for protein-ligand complexes from the PDB. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D522-6. PMID: 16381925 [PubMed - indexed for MEDLINE]
The University of Minnesota Biocatalysis/Biodegradation Database: the first decade. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D517-21. PMID: 16381924 [PubMed - indexed for MEDLINE] 1437: Caspi R, Foerster H, Fulcher CA, Hopkinson R, Ingraham J, Kaipa P, Krummenacker M, Paley S, Pick J, Rhee SY, Tissier C, Zhang P, Karp PD. MetaCyc: a multiorganism database of metabolic pathways and enzymes. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D511-6. PMID: 16381923 [PubMed - indexed for MEDLINE]
LMPD: LIPID MAPS proteome database. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D507-10. PMID: 16381922 [PubMed - indexed for MEDLINE] 1439: Bader GD, Cary MP, Sander C. Pathguide: a pathway resource list. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D504-6. PMID: 16381921 [PubMed - indexed for MEDLINE] 1440: Stover NA, Krieger CJ, Binkley G, Dong Q, Fisk DG, Nash R, Sethuraman A, Weng S, Cherry JM. Tetrahymena Genome Database (TGD): a new genomic resource for Tetrahymena thermophila research. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D500-3. PMID: 16381920 [PubMed - indexed for MEDLINE] 1441: Sullivan JC, Ryan JF, Watson JA, Webb J, Mullikin JC, Rokhsar D, Finnerty JR.
StellaBase: the Nematostella vectensis Genomics Database. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D495-9. PMID: 16381919 [PubMed - indexed for MEDLINE]
Richardson K, Xu A, Perrimon N, Mathey-Prevot B. FlyRNAi: the Drosophila RNAi screening center database. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D489-94. PMID: 16381918 [PubMed - indexed for MEDLINE]
FlyBase: anatomical data, images and queries. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D484-8. PMID: 16381917 [PubMed - indexed for MEDLINE] 1444: Sims D, Bursteinas B, Gao Q, Zvelebil M, Baum B. FLIGHT: database and tools for the integration and cross-correlation of large-scale RNAi phenotypic datasets. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D479-83. PMID: 16381916 [PubMed - indexed for MEDLINE]
Chan J, Chen N, Chen WJ, Davis P, Fiedler TJ, Girard L, Harris TW, Kenny EE, Kishore R, Lawson D, Lee R, Muller HM, Nakamura C, Ozersky P, Petcherski A, Rogers A, Spooner W, Tuli MA, Van Auken K, Wang D, Durbin R, Spieth J, Stein LD, Sternberg PW. WormBase: better software, richer content. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D475-8. PMID: 16381915 [PubMed - indexed for MEDLINE] 1446: Johnson DH, Tsao J, Luo M, Carson M. SGCEdb: a flexible database and web interface integrating experimental results and analysis for structural genomics focusing on Caenorhabditis elegans. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D471-4. PMID: 16381914 [PubMed - indexed for MEDLINE]
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Phytophthora functional genomics database (PFGD): functional genomics of phytophthora-plant interactions. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D465-70. PMID: 16381913 [PubMed - indexed for MEDLINE] 1448: Stamm S, Riethoven JJ, Le Texier V, Gopalakrishnan C, Kumanduri V, Tang Y, Barbosa-Morais NL, Thanaraj TA. ASD: a bioinformatics resource on alternative splicing. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D46-55. PMID: 16381912 [PubMed - indexed for MEDLINE]
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PHI-base: a new database for pathogen host interactions. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D459-64. PMID: 16381911 [PubMed - indexed for MEDLINE]
Stumpflen V, Mewes HW, Adam G. FGDB: a comprehensive fungal genome resource on the plant pathogen Fusarium graminearum. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D456-8. PMID: 16381910 [PubMed - indexed for MEDLINE] 1451: Byrne KP, Wolfe KH. Visualizing syntenic relationships among the hemiascomycetes with the Yeast Gene Order Browser. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D452-5. PMID: 16381909 [PubMed - indexed for MEDLINE]
Alenquer M, Freitas AT, Oliveira AL, Sa-Correia I. The YEASTRACT database: a tool for the analysis of transcription regulatory associations in Saccharomyces cerevisiae. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D446-51. PMID: 16381908 [PubMed - indexed for MEDLINE] 1453: Hirschman JE, Balakrishnan R, Christie KR, Costanzo MC, Dwight SS, Engel SR, Fisk DG, Hong EL, Livstone MS, Nash R, Park J, Oughtred R, Skrzypek M, Starr B, Theesfeld CL, Williams J, Andrada R, Binkley G, Dong Q, Lane C, Miyasato S, Sethuraman A, Schroeder M, Thanawala MK, Weng S, Dolinski K, Botstein D, Cherry JM. Genome Snapshot: a new resource at the Saccharomyces Genome Database (SGD) presenting an overview of the Saccharomyces cerevisiae genome. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D442-5. PMID: 16381907 [PubMed - indexed for MEDLINE]
Stumpflen V. MPact: the MIPS protein interaction resource on yeast. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D436-41. PMID: 16381906 [PubMed - indexed for MEDLINE]
Genolevures complete genomes provide data and tools for comparative genomics of hemiascomycetous yeasts. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D432-5. PMID: 16381905 [PubMed - indexed for MEDLINE]
TcruziDB: an integrated, post-genomics community resource for Trypanosoma cruzi. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D428-31. PMID: 16381904 [PubMed - indexed for MEDLINE] 1457: Chisholm RL, Gaudet P, Just EM, Pilcher KE, Fey P, Merchant SN, Kibbe WA. dictyBase, the model organism database for Dictyostelium discoideum. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D423-7. PMID: 16381903 [PubMed - indexed for MEDLINE]
P, Wang S, He CZ, Su Y, Miller J, Kraemer E, Kissinger JC. CryptoDB: a Cryptosporidium bioinformatics resource update. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D419-22. PMID: 16381902 [PubMed - indexed for MEDLINE]
Simpson J, Hofmann O, Hide W, Glatting KH, Huber W, Pepperkok R, Poustka A, Wiemann S. The LIFEdb database in 2006. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D415-8. PMID: 16381901 [PubMed - indexed for MEDLINE] 1460: Mishra GR, Suresh M, Kumaran K, Kannabiran N, Suresh S, Bala P, Shivakumar K, Anuradha N, Reddy R, Raghavan TM, Menon S, Hanumanthu G, Gupta M, Upendran S, Gupta S, Mahesh M, Jacob B, Mathew P, Chatterjee P, Arun KS, Sharma S, Chandrika KN, Deshpande N, Palvankar K, Raghavnath R, Krishnakanth R, Karathia H, Rekha B, Nayak R, Vishnupriya G, Kumar HG, Nagini M, Kumar GS, Jose R, Deepthi P, Mohan SS, Gandhi TK, Harsha HC, Deshpande KS, Sarker M, Prasad TS, Pandey A. Human protein reference database--2006 update. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D411-4. PMID: 16381900 [PubMed - indexed for MEDLINE] 1461: Glasner JD, Rusch M, Liss P, Plunkett G 3rd, Cabot EL, Darling A, Anderson BD, Infield-Harm P, Gilson MC, Perna NT. ASAP: a resource for annotating, curating, comparing, and disseminating genomic data.
Nucleic Acids Res. 2006 Jan 1;34(Database issue):D41-5. PMID: 16381899 [PubMed - indexed for MEDLINE] 1462: Schneider KL, Pollard KS, Baertsch R, Pohl A, Lowe TM. The UCSC Archaeal Genome Browser. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D407-10. PMID: 16381898 [PubMed - indexed for MEDLINE] 1463: Dieterich G, Karst U, Fischer E, Wehland J, Jansch L. LEGER: knowledge database and visualization tool for comparative genomics of pathogenic and non-pathogenic Listeria species. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D402-6. PMID: 16381897 [PubMed - indexed for MEDLINE]
ShiBASE: an integrated database for comparative genomics of Shigella. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D398-401. PMID: 16381896 [PubMed - indexed for MEDLINE] 1465: Salgado H, Gama-Castro S, Peralta-Gil M, Diaz-Peredo E, Sanchez-Solano F, Santos-Zavaleta A, Martinez-Flores I, Jimenez-Jacinto V, Bonavides-Martinez C, Segura-Salazar J, Martinez-Antonio A, Collado-Vides J. RegulonDB (version 5.0): Escherichia coli K-12 transcriptional regulatory network, operon organization, and growth conditions. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D394-7. PMID: 16381895 [PubMed - indexed for MEDLINE]
Glockner FO. Megx.net--database resources for marine ecological genomics. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D390-3. PMID: 16381894 [PubMed - indexed for MEDLINE]
C, Johnson JE, Brooks CL 3rd, Reddy VS. VIPERdb: a relational database for structural virology. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D386-9. PMID: 16381893 [PubMed - indexed for MEDLINE]
DPVweb: a comprehensive database of plant and fungal virus genes and genomes. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D382-5. PMID: 16381892 [PubMed - indexed for MEDLINE] 1469: Tripathy S, Pandey VN, Fang B, Salas F, Tyler BM. VMD: a community annotation database for oomycetes and microbial genomes. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D379-81. PMID: 16381891 [PubMed - indexed for MEDLINE] 1470: Wang H, Kaloper M, Benham CJ. SIDDBASE: a database containing the stress-induced DNA duplex destabilization (SIDD) profiles of complete microbial genomes. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D373-8. PMID: 16381890 [PubMed - indexed for MEDLINE]
Transterm--extended search facilities and improved integration with other databases. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D37-40. PMID: 16381889 [PubMed - indexed for MEDLINE]
D'Souza M. PUMA2--grid-based high-throughput analysis of genomes and metabolic pathways. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D369-72. PMID: 16381888 [PubMed - indexed for MEDLINE]
OrthoMCL-DB: querying a comprehensive multi-species collection of ortholog groups. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D363-8. PMID: 16381887 [PubMed - indexed for MEDLINE] 1474: Okuda S, Katayama T, Kawashima S, Goto S, Kanehisa M. ODB: a database of operons accumulating known operons across multiple genomes. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D358-62. PMID: 16381886 [PubMed - indexed for MEDLINE] 1475: Kanehisa M, Goto S, Hattori M, Aoki-Kinoshita KF, Itoh M, Kawashima S, Katayama T, Araki M, Hirakawa M. From genomics to chemical genomics: new developments in KEGG. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D354-7. PMID: 16381885 [PubMed - indexed for MEDLINE]
INVHOGEN: a database of homologous invertebrate genes. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D349-53. PMID: 16381884 [PubMed - indexed for MEDLINE] 1477: Markowitz VM, Korzeniewski F, Palaniappan K, Szeto E, Werner G, Padki A, Zhao X, Dubchak I, Hugenholtz P, Anderson I, Lykidis A, Mavromatis K, Ivanova N, Kyrpides NC. The integrated microbial genomes (IMG) system. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D344-8. PMID: 16381883 [PubMed - indexed for MEDLINE] 1478: Perrodou E, Deshayes C, Muller J, Schaeffer C, Van Dorsselaer A, Ripp R, Poch O, Reyrat JM, Lecompte O. ICDS database: interrupted CoDing sequences in prokaryotic genomes. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D338-43. PMID: 16381882 [PubMed - indexed for MEDLINE]
xBASE, a collection of online databases for bacterial comparative genomics. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D335-7. PMID: 16381881 [PubMed - indexed for MEDLINE] 1480: Liolios K, Tavernarakis N, Hugenholtz P, Kyrpides NC. The Genomes On Line Database (GOLD) v.2: a monitor of genome projects worldwide. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D332-4. PMID: 16381880 [PubMed - indexed for MEDLINE]
PANDIT: an evolution-centric database of protein and associated nucleotide domains with inferred trees. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D327-31. PMID: 16381879 [PubMed - indexed for MEDLINE]
The Gene Ontology (GO) project in 2006. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D322-6. PMID: 16381878 [PubMed - indexed for MEDLINE] 1483: Siguier P, Perochon J, Lestrade L, Mahillon J, Chandler M. ISfinder: the reference centre for bacterial insertion sequences. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D32-6. PMID: 16381877 [PubMed - indexed for MEDLINE] 1484: Eyre TA, Ducluzeau F, Sneddon TP, Povey S, Bruford EA, Lush MJ. The HUGO Gene Nomenclature Database, 2006 updates. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D319-21. PMID: 16381876 [PubMed - indexed for MEDLINE] 1485: Kopp J, Schwede T. The SWISS-MODEL Repository: new features and functionalities. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D315-8. PMID: 16381875 [PubMed - indexed for MEDLINE] 1486: Winter C, Henschel A, Kim WK, Schroeder M. SCOPPI: a structural classification of protein-protein interfaces. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D310-4. PMID: 16381874 [PubMed - indexed for MEDLINE] 1487: Castrignano T, De Meo PD, Cozzetto D, Talamo IG, Tramontano A. The PMDB Protein Model Database. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D306-9. PMID: 16381873 [PubMed - indexed for MEDLINE] 1488: Kouranov A, Xie L, de la Cruz J, Chen L, Westbrook J, Bourne PE, Berman HM.
The RCSB PDB information portal for structural genomics. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D302-5. PMID: 16381872 [PubMed - indexed for MEDLINE]
The Molecular Biology Database Collection: 2006 update. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D3-5. PMID: 16381871 [PubMed - indexed for MEDLINE] 1490: Flores S, Echols N, Milburn D, Hespenheide B, Keating K, Lu J, Wells S, Yu EZ, Thorpe M, Gerstein M. The Database of Macromolecular Motions: new features added at the decade mark. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D296-301. PMID: 16381870 [PubMed - indexed for MEDLINE]
Marti-Renom M, Karchin R, Webb BM, Eramian D, Shen MY, Kelly L, Melo F, Sali A. MODBASE: a database of annotated comparative protein structure models and associated resources. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D291-5. PMID: 16381869 [PubMed - indexed for MEDLINE] 1492: Glaser RL, Ramsay JP, Morison IM. The imprinted gene and parent-of-origin effect database now includes parental origin of de novo mutations. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D29-31. PMID: 16381868 [PubMed - indexed for MEDLINE]
A, Hussain A, Fillon J, Henrick K, Velankar S. E-MSD: improving data deposition and structure quality. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D287-90. PMID: 16381867 [PubMed - indexed for MEDLINE]
iMOTdb--a comprehensive collection of spatially interacting motifs in proteins. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D285-6. PMID: 16381866 [PubMed - indexed for MEDLINE] 1495: Yeats C, Maibaum M, Marsden R, Dibley M, Lee D, Addou S, Orengo CA. Gene3D: modelling protein structure, function and evolution. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D281-4. PMID: 16381865 [PubMed - indexed for MEDLINE] 1496: Li Z, Ye Y, Godzik A. Flexible Structural Neighborhood--a database of protein structural similarities and alignments. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D277-80. PMID: 16381864 [PubMed - indexed for MEDLINE]
DMAPS: a database of multiple alignments for protein structures. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D273-6. PMID: 16381863 [PubMed - indexed for MEDLINE] 1498: Rawlings ND, Morton FR, Barrett AJ. MEROPS: the peptidase database. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D270-2. PMID: 16381862 [PubMed - indexed for MEDLINE] 1499: Donizelli M, Djite MA, Le Novere N. LGICdb: a manually curated sequence database after the genomes. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D267-9. PMID: 16381861 [PubMed - indexed for MEDLINE] Download 12.14 Mb. Share with your friends:
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