Display Settings:

Format
Items per page
Sort by

Send to:

Choose Destination

Results: 1 to 20 of 34

1.

A controlled vocabulary for pathway entities and events.

Jupe S, Jassal B, Williams M, Wu G.

Database (Oxford). 2014 Jun 20;2014. pii: bau060. doi: 10.1093/database/bau060. Print 2014.

PMID:
24951798
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

Expert curation in UniProtKB: a case study on dealing with conflicting and erroneous data.

Poux S, Magrane M, Arighi CN, Bridge A, O'Donovan C, Laiho K; UniProt Consortium.

Database (Oxford). 2014 Mar 12;2014:bau016. doi: 10.1093/database/bau016. Print 2014.

PMID:
24622611
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Canto: an online tool for community literature curation.

Rutherford KM, Harris MA, Lock A, Oliver SG, Wood V.

Bioinformatics. 2014 Jun 15;30(12):1791-2. doi: 10.1093/bioinformatics/btu103. Epub 2014 Feb 25.

PMID:
24574118
[PubMed - in process]
Free PMC Article
4.

DeNovoGUI: an open source graphical user interface for de novo sequencing of tandem mass spectra.

Muth T, Weilnböck L, Rapp E, Huber CG, Martens L, Vaudel M, Barsnes H.

J Proteome Res. 2014 Feb 7;13(2):1143-6. doi: 10.1021/pr4008078. Epub 2014 Jan 7.

PMID:
24295440
[PubMed - in process]
Free PMC Article
5.

Protein Ontology: a controlled structured network of protein entities.

Natale DA, Arighi CN, Blake JA, Bult CJ, Christie KR, Cowart J, D'Eustachio P, Diehl AD, Drabkin HJ, Helfer O, Huang H, Masci AM, Ren J, Roberts NV, Ross K, Ruttenberg A, Shamovsky V, Smith B, Yerramalla MS, Zhang J, AlJanahi A, Çelen I, Gan C, Lv M, Schuster-Lezell E, Wu CH.

Nucleic Acids Res. 2014 Jan;42(Database issue):D415-21. doi: 10.1093/nar/gkt1173. Epub 2013 Nov 21.

PMID:
24270789
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

The Reactome pathway knowledgebase.

Croft D, Mundo AF, Haw R, Milacic M, Weiser J, Wu G, Caudy M, Garapati P, Gillespie M, Kamdar MR, Jassal B, Jupe S, Matthews L, May B, Palatnik S, Rothfels K, Shamovsky V, Song H, Williams M, Birney E, Hermjakob H, Stein L, D'Eustachio P.

Nucleic Acids Res. 2014 Jan;42(Database issue):D472-7. doi: 10.1093/nar/gkt1102. Epub 2013 Nov 15.

PMID:
24243840
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Annotating cancer variants and anti-cancer therapeutics in reactome.

Milacic M, Haw R, Rothfels K, Wu G, Croft D, Hermjakob H, D'Eustachio P, Stein L.

Cancers (Basel). 2012 Nov 8;4(4):1180-211. doi: 10.3390/cancers4041180.

PMID:
24213504
[PubMed]
Free PMC Article
8.

Tools (Viewer, Library and Validator) that facilitate use of the peptide and protein identification standard format, termed mzIdentML.

Ghali F, Krishna R, Lukasse P, Martínez-Bartolomé S, Reisinger F, Hermjakob H, Vizcaíno JA, Jones AR.

Mol Cell Proteomics. 2013 Nov;12(11):3026-35. doi: 10.1074/mcp.O113.029777. Epub 2013 Jun 28.

PMID:
23813117
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Use of the protein ontology for multi-faceted analysis of biological processes: a case study of the spindle checkpoint.

Ross KE, Arighi CN, Ren J, Natale DA, Huang H, Wu CH.

Front Genet. 2013 Apr 26;4:62. doi: 10.3389/fgene.2013.00062. eCollection 2013.

PMID:
23637705
[PubMed]
Free PMC Article
10.

From Peptidome to PRIDE: public proteomics data migration at a large scale.

Csordas A, Wang R, Ríos D, Reisinger F, Foster JM, Slotta DJ, Vizcaíno JA, Hermjakob H.

Proteomics. 2013 May;13(10-11):1692-5. doi: 10.1002/pmic.201200514. Epub 2013 Apr 20.

PMID:
23533138
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Application of text-mining for updating protein post-translational modification annotation in UniProtKB.

Veuthey AL, Bridge A, Gobeill J, Ruch P, McEntyre JR, Bougueleret L, Xenarios I.

BMC Bioinformatics. 2013 Mar 22;14:104. doi: 10.1186/1471-2105-14-104.

PMID:
23517090
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Precise generation of systems biology models from KEGG pathways.

Wrzodek C, Büchel F, Ruff M, Dräger A, Zell A.

BMC Syst Biol. 2013 Feb 21;7:15. doi: 10.1186/1752-0509-7-15.

PMID:
23433509
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Controlled vocabularies and ontologies in proteomics: overview, principles and practice.

Mayer G, Jones AR, Binz PA, Deutsch EW, Orchard S, Montecchi-Palazzi L, Vizcaíno JA, Hermjakob H, Oveillero D, Julian R, Stephan C, Meyer HE, Eisenacher M.

Biochim Biophys Acta. 2014 Jan;1844(1 Pt A):98-107. doi: 10.1016/j.bbapap.2013.02.017. Epub 2013 Feb 19. Review.

PMID:
23429179
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Manual Gene Ontology annotation workflow at the Mouse Genome Informatics Database.

Drabkin HJ, Blake JA; Mouse Genome Informatics Database.

Database (Oxford). 2012 Oct 29;2012:bas045. doi: 10.1093/database/bas045. Print 2012.

PMID:
23110975
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

A cell-based approach to the human proteome project.

Kelleher NL.

J Am Soc Mass Spectrom. 2012 Oct;23(10):1617-24. Epub 2012 Sep 14.

PMID:
22976808
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

The PRoteomics IDEntification (PRIDE) Converter 2 framework: an improved suite of tools to facilitate data submission to the PRIDE database and the ProteomeXchange consortium.

Côté RG, Griss J, Dianes JA, Wang R, Wright JC, van den Toorn HW, van Breukelen B, Heck AJ, Hulstaert N, Martens L, Reisinger F, Csordas A, Ovelleiro D, Perez-Rivevol Y, Barsnes H, Hermjakob H, Vizcaíno JA.

Mol Cell Proteomics. 2012 Dec;11(12):1682-9. doi: 10.1074/mcp.O112.021543. Epub 2012 Sep 4.

PMID:
22949509
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

BioJava: an open-source framework for bioinformatics in 2012.

Prlić A, Yates A, Bliven SE, Rose PW, Jacobsen J, Troshin PV, Chapman M, Gao J, Koh CH, Foisy S, Holland R, Rimsa G, Heuer ML, Brandstätter-Müller H, Bourne PE, Willis S.

Bioinformatics. 2012 Oct 15;28(20):2693-5. doi: 10.1093/bioinformatics/bts494. Epub 2012 Aug 9.

PMID:
22877863
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Post-translational modification of cardiac proteasomes: functional delineation enabled by proteomics.

Scruggs SB, Zong NC, Wang D, Stefani E, Ping P.

Am J Physiol Heart Circ Physiol. 2012 Jul;303(1):H9-18. doi: 10.1152/ajpheart.00189.2012. Epub 2012 Apr 20. Review. Erratum in: Am J Physiol Heart Circ Physiol. 2012 Aug 15;303(4):H499.

PMID:
22523251
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

The UniProtKB/Swiss-Prot Tox-Prot program: A central hub of integrated venom protein data.

Jungo F, Bougueleret L, Xenarios I, Poux S.

Toxicon. 2012 Sep 15;60(4):551-7. doi: 10.1016/j.toxicon.2012.03.010. Epub 2012 Mar 23.

PMID:
22465017
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

PRIDE: quality control in a proteomics data repository.

Csordas A, Ovelleiro D, Wang R, Foster JM, Ríos D, Vizcaíno JA, Hermjakob H.

Database (Oxford). 2012 Mar 20;2012:bas004. doi: 10.1093/database/bas004. Print 2012.

PMID:
22434838
[PubMed - indexed for MEDLINE]
Free PMC Article

Display Settings:

Format
Items per page
Sort by

Send to:

Choose Destination

Supplemental Content

Write to the Help Desk