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Items: 1 to 20 of 88

1.

Molecular signatures database (MSigDB) 3.0.

Liberzon A, Subramanian A, Pinchback R, Thorvaldsdóttir H, Tamayo P, Mesirov JP.

Bioinformatics. 2011 Jun 15;27(12):1739-40. doi: 10.1093/bioinformatics/btr260. Epub 2011 May 5.

2.

A description of the Molecular Signatures Database (MSigDB) Web site.

Liberzon A.

Methods Mol Biol. 2014;1150:153-60. doi: 10.1007/978-1-4939-0512-6_9.

PMID:
24743996
3.

CGKB: an annotation knowledge base for cowpea (Vigna unguiculata L.) methylation filtered genomic genespace sequences.

Chen X, Laudeman TW, Rushton PJ, Spraggins TA, Timko MP.

BMC Bioinformatics. 2007 Apr 19;8:129.

4.

GeneDB--an annotation database for pathogens.

Logan-Klumpler FJ, De Silva N, Boehme U, Rogers MB, Velarde G, McQuillan JA, Carver T, Aslett M, Olsen C, Subramanian S, Phan I, Farris C, Mitra S, Ramasamy G, Wang H, Tivey A, Jackson A, Houston R, Parkhill J, Holden M, Harb OS, Brunk BP, Myler PJ, Roos D, Carrington M, Smith DF, Hertz-Fowler C, Berriman M.

Nucleic Acids Res. 2012 Jan;40(Database issue):D98-108. doi: 10.1093/nar/gkr1032. Epub 2011 Nov 23.

5.

PlantGDB, plant genome database and analysis tools.

Dong Q, Schlueter SD, Brendel V.

Nucleic Acids Res. 2004 Jan 1;32(Database issue):D354-9.

6.

Gene expression analysis in clear cell renal cell carcinoma using gene set enrichment analysis for biostatistical management.

Maruschke M, Reuter D, Koczan D, Hakenberg OW, Thiesen HJ.

BJU Int. 2011 Jul;108(2 Pt 2):E29-35. doi: 10.1111/j.1464-410X.2010.09794.x. Epub 2011 Mar 16.

7.

New resources for functional analysis of omics data for the genus Aspergillus.

Nitsche BM, Crabtree J, Cerqueira GC, Meyer V, Ram AF, Wortman JR.

BMC Genomics. 2011 Oct 5;12:486. doi: 10.1186/1471-2164-12-486.

8.

The Innate Immune Database (IIDB).

Korb M, Rust AG, Thorsson V, Battail C, Li B, Hwang D, Kennedy KA, Roach JC, Rosenberger CM, Gilchrist M, Zak D, Johnson C, Marzolf B, Aderem A, Shmulevich I, Bolouri H.

BMC Immunol. 2008 Mar 5;9:7. doi: 10.1186/1471-2172-9-7.

9.

PomBase: a comprehensive online resource for fission yeast.

Wood V, Harris MA, McDowall MD, Rutherford K, Vaughan BW, Staines DM, Aslett M, Lock A, Bähler J, Kersey PJ, Oliver SG.

Nucleic Acids Res. 2012 Jan;40(Database issue):D695-9. doi: 10.1093/nar/gkr853. Epub 2011 Oct 28.

10.

Augmented annotation and orthologue analysis for Oryctolagus cuniculus: Better Bunny.

Craig DB, Kannan S, Dombkowski AA.

BMC Bioinformatics. 2012 May 8;13:84. doi: 10.1186/1471-2105-13-84.

11.

MODBASE, a database of annotated comparative protein structure models, and associated resources.

Pieper U, Eswar N, Braberg H, Madhusudhan MS, Davis FP, Stuart AC, Mirkovic N, Rossi A, Marti-Renom MA, Fiser A, Webb B, Greenblatt D, Huang CC, Ferrin TE, Sali A.

Nucleic Acids Res. 2004 Jan 1;32(Database issue):D217-22.

12.

The Génolevures database.

Martin T, Sherman DJ, Durrens P.

C R Biol. 2011 Aug-Sep;334(8-9):585-9. doi: 10.1016/j.crvi.2011.05.004. Epub 2011 Jun 30. Review.

PMID:
21819938
13.

The Molecular Signatures Database (MSigDB) hallmark gene set collection.

Liberzon A, Birger C, Thorvaldsdóttir H, Ghandi M, Mesirov JP, Tamayo P.

Cell Syst. 2015 Dec 23;1(6):417-425.

PMID:
26771021
14.

Parasite genome databases and web-based resources.

Hertz-Fowler C, Hall N.

Methods Mol Biol. 2004;270:45-74.

PMID:
15153622
15.

The Aspergillus Genome Database (AspGD): recent developments in comprehensive multispecies curation, comparative genomics and community resources.

Arnaud MB, Cerqueira GC, Inglis DO, Skrzypek MS, Binkley J, Chibucos MC, Crabtree J, Howarth C, Orvis J, Shah P, Wymore F, Binkley G, Miyasato SR, Simison M, Sherlock G, Wortman JR.

Nucleic Acids Res. 2012 Jan;40(Database issue):D653-9. doi: 10.1093/nar/gkr875. Epub 2011 Nov 12.

16.

GeneTools--application for functional annotation and statistical hypothesis testing.

Beisvag V, Jünge FK, Bergum H, Jølsum L, Lydersen S, Günther CC, Ramampiaro H, Langaas M, Sandvik AK, Laegreid A.

BMC Bioinformatics. 2006 Oct 24;7:470.

17.

Recent additions and improvements to the Onto-Tools.

Khatri P, Sellamuthu S, Malhotra P, Amin K, Done A, Draghici S.

Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W762-5.

18.

Oncotator: cancer variant annotation tool.

Ramos AH, Lichtenstein L, Gupta M, Lawrence MS, Pugh TJ, Saksena G, Meyerson M, Getz G.

Hum Mutat. 2015 Apr;36(4):E2423-9. doi: 10.1002/humu.22771. Epub 2015 Mar 16.

PMID:
25703262
19.

VitisExpDB: a database resource for grape functional genomics.

Doddapaneni H, Lin H, Walker MA, Yao J, Civerolo EL.

BMC Plant Biol. 2008 Feb 28;8:23. doi: 10.1186/1471-2229-8-23.

20.

GeneWeaver: a web-based system for integrative functional genomics.

Baker EJ, Jay JJ, Bubier JA, Langston MA, Chesler EJ.

Nucleic Acids Res. 2012 Jan;40(Database issue):D1067-76. doi: 10.1093/nar/gkr968. Epub 2011 Nov 12.

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