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For: Jenkinson AM, Albrecht M, Birney E, Blankenburg H, Down T, Finn RD, Hermjakob H, Hubbard TJP, Jimenez RC, Jones P, Kähäri A, Kulesha E, Macías JR, Reeves GA, Prlić A. Integrating biological data--the Distributed Annotation System. BMC Bioinformatics 2008;9 Suppl 8:S3. [PMID: 18673527 PMCID: PMC2500094 DOI: 10.1186/1471-2105-9-s8-s3] [Citation(s) in RCA: 78] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]  Open
Number Cited by Other Article(s)
51
Wilkinson P, Sengerova J, Matteoni R, Chen CK, Soulat G, Ureta-Vidal A, Fessele S, Hagn M, Massimi M, Pickford K, Butler RH, Marschall S, Mallon AM, Pickard A, Raspa M, Scavizzi F, Fray M, Larrigaldie V, Leyritz J, Birney E, Tocchini-Valentini GP, Brown S, Herault Y, Montoliu L, de Angelis MH, Smedley D. EMMA--mouse mutant resources for the international scientific community. Nucleic Acids Res 2009;38:D570-6. [PMID: 19783817 PMCID: PMC2808872 DOI: 10.1093/nar/gkp799] [Citation(s) in RCA: 38] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]  Open
52
The evolution of protein functions and networks: a family-centric approach. Biochem Soc Trans 2009;37:745-50. [PMID: 19614587 DOI: 10.1042/bst0370745] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
53
Guex N, Peitsch MC, Schwede T. Automated comparative protein structure modeling with SWISS-MODEL and Swiss-PdbViewer: a historical perspective. Electrophoresis 2009;30 Suppl 1:S162-73. [PMID: 19517507 DOI: 10.1002/elps.200900140] [Citation(s) in RCA: 1320] [Impact Index Per Article: 88.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
54
Nicol JW, Helt GA, Blanchard SG, Raja A, Loraine AE. The Integrated Genome Browser: free software for distribution and exploration of genome-scale datasets. Bioinformatics 2009;25:2730-1. [PMID: 19654113 PMCID: PMC2759552 DOI: 10.1093/bioinformatics/btp472] [Citation(s) in RCA: 476] [Impact Index Per Article: 31.7] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]  Open
55
Zielinska DF, Gnad F, Jedrusik-Bode M, Wiśniewski JR, Mann M. Caenorhabditis elegans Has a Phosphoproteome Atypical for Metazoans That Is Enriched in Developmental and Sex Determination Proteins. J Proteome Res 2009;8:4039-49. [DOI: 10.1021/pr900384k] [Citation(s) in RCA: 57] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
56
Blankenburg H, Finn RD, Prlić A, Jenkinson AM, Ramírez F, Emig D, Schelhorn SE, Büch J, Lengauer T, Albrecht M. DASMI: exchanging, annotating and assessing molecular interaction data. ACTA ACUST UNITED AC 2009;25:1321-8. [PMID: 19420069 PMCID: PMC2677739 DOI: 10.1093/bioinformatics/btp142] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
57
Barrio AM, Lagercrantz E, Sperber GO, Blomberg J, Bongcam-Rudloff E. Annotation and visualization of endogenous retroviral sequences using the Distributed Annotation System (DAS) and eBioX. BMC Bioinformatics 2009;10 Suppl 6:S18. [PMID: 19534743 PMCID: PMC2697641 DOI: 10.1186/1471-2105-10-s6-s18] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]  Open
58
Blankenburg H, Ramírez F, Büch J, Albrecht M. DASMIweb: online integration, analysis and assessment of distributed protein interaction data. Nucleic Acids Res 2009;37:W122-8. [PMID: 19502495 PMCID: PMC2703953 DOI: 10.1093/nar/gkp438] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]  Open
59
Sadowski MI, Jones DT. The sequence-structure relationship and protein function prediction. Curr Opin Struct Biol 2009;19:357-62. [PMID: 19406632 DOI: 10.1016/j.sbi.2009.03.008] [Citation(s) in RCA: 66] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2009] [Accepted: 03/16/2009] [Indexed: 11/28/2022]
60
Messina DN, Sonnhammer ELL. DASher: a stand-alone protein sequence client for DAS, the Distributed Annotation System. ACTA ACUST UNITED AC 2009;25:1333-4. [PMID: 19297349 DOI: 10.1093/bioinformatics/btp153] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
61
Arnold K, Kiefer F, Kopp J, Battey JND, Podvinec M, Westbrook JD, Berman HM, Bordoli L, Schwede T. The Protein Model Portal. JOURNAL OF STRUCTURAL AND FUNCTIONAL GENOMICS 2009;10:1-8. [PMID: 19037750 PMCID: PMC2704613 DOI: 10.1007/s10969-008-9048-5] [Citation(s) in RCA: 117] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/17/2008] [Accepted: 11/02/2008] [Indexed: 11/28/2022]
62
Thornton J. Annotations for all by all - the BioSapiens network. Genome Biol 2009;10:401. [PMID: 19232072 PMCID: PMC2688284 DOI: 10.1186/gb-2009-10-2-401] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]  Open
63
Kell DB. Iron behaving badly: inappropriate iron chelation as a major contributor to the aetiology of vascular and other progressive inflammatory and degenerative diseases. BMC Med Genomics 2009;2:2. [PMID: 19133145 PMCID: PMC2672098 DOI: 10.1186/1755-8794-2-2] [Citation(s) in RCA: 372] [Impact Index Per Article: 24.8] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/02/2008] [Accepted: 01/08/2009] [Indexed: 01/19/2023]  Open
64
Kiefer F, Arnold K, Künzli M, Bordoli L, Schwede T. The SWISS-MODEL Repository and associated resources. Nucleic Acids Res 2009;37:D387-92. [PMID: 18931379 PMCID: PMC2686475 DOI: 10.1093/nar/gkn750] [Citation(s) in RCA: 1570] [Impact Index Per Article: 104.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/15/2008] [Accepted: 10/05/2008] [Indexed: 12/12/2022]  Open
65
Hubbard TJP, Aken BL, Ayling S, Ballester B, Beal K, Bragin E, Brent S, Chen Y, Clapham P, Clarke L, Coates G, Fairley S, Fitzgerald S, Fernandez-Banet J, Gordon L, Graf S, Haider S, Hammond M, Holland R, Howe K, Jenkinson A, Johnson N, Kahari A, Keefe D, Keenan S, Kinsella R, Kokocinski F, Kulesha E, Lawson D, Longden I, Megy K, Meidl P, Overduin B, Parker A, Pritchard B, Rios D, Schuster M, Slater G, Smedley D, Spooner W, Spudich G, Trevanion S, Vilella A, Vogel J, White S, Wilder S, Zadissa A, Birney E, Cunningham F, Curwen V, Durbin R, Fernandez-Suarez XM, Herrero J, Kasprzyk A, Proctor G, Smith J, Searle S, Flicek P. Ensembl 2009. Nucleic Acids Res 2008;37:D690-7. [PMID: 19033362 PMCID: PMC2686571 DOI: 10.1093/nar/gkn828] [Citation(s) in RCA: 683] [Impact Index Per Article: 42.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]  Open
66
Lawson D, Arensburger P, Atkinson P, Besansky NJ, Bruggner RV, Butler R, Campbell KS, Christophides GK, Christley S, Dialynas E, Hammond M, Hill CA, Konopinski N, Lobo NF, MacCallum RM, Madey G, Megy K, Meyer J, Redmond S, Severson DW, Stinson EO, Topalis P, Birney E, Gelbart WM, Kafatos FC, Louis C, Collins FH. VectorBase: a data resource for invertebrate vector genomics. Nucleic Acids Res 2008;37:D583-7. [PMID: 19028744 PMCID: PMC2686483 DOI: 10.1093/nar/gkn857] [Citation(s) in RCA: 185] [Impact Index Per Article: 11.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]  Open
67
Gardner PP, Daub J, Tate JG, Nawrocki EP, Kolbe DL, Lindgreen S, Wilkinson AC, Finn RD, Griffiths-Jones S, Eddy SR, Bateman A. Rfam: updates to the RNA families database. Nucleic Acids Res 2008;37:D136-40. [PMID: 18953034 PMCID: PMC2686503 DOI: 10.1093/nar/gkn766] [Citation(s) in RCA: 699] [Impact Index Per Article: 43.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]  Open
68
Review of the selected proceedings of the Fifth International Workshop on Data Integration in the Life Sciences 2008. BMC Bioinformatics 2008;9 Suppl 8:S1. [PMID: 18673525 PMCID: PMC2500092 DOI: 10.1186/1471-2105-9-s8-s1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]  Open
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