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Items: 1 to 20 of 89

1.

Pseudogene.org: a comprehensive database and comparison platform for pseudogene annotation.

Karro JE, Yan Y, Zheng D, Zhang Z, Carriero N, Cayting P, Harrrison P, Gerstein M.

Nucleic Acids Res. 2007 Jan;35(Database issue):D55-60. Epub 2006 Nov 11.

2.

VEGA, the genome browser with a difference.

Loveland J.

Brief Bioinform. 2005 Jun;6(2):189-93. Review.

3.

DAVID Knowledgebase: a gene-centered database integrating heterogeneous gene annotation resources to facilitate high-throughput gene functional analysis.

Sherman BT, Huang da W, Tan Q, Guo Y, Bour S, Liu D, Stephens R, Baseler MW, Lane HC, Lempicki RA.

BMC Bioinformatics. 2007 Nov 2;8:426.

4.

Tetrahymena Genome Database (TGD): a new genomic resource for Tetrahymena thermophila research.

Stover NA, Krieger CJ, Binkley G, Dong Q, Fisk DG, Nash R, Sethuraman A, Weng S, Cherry JM.

Nucleic Acids Res. 2006 Jan 1;34(Database issue):D500-3.

5.

Pseudofam: the pseudogene families database.

Lam HY, Khurana E, Fang G, Cayting P, Carriero N, Cheung KH, Gerstein MB.

Nucleic Acids Res. 2009 Jan;37(Database issue):D738-43. doi: 10.1093/nar/gkn758. Epub 2008 Oct 28.

6.

PseudoGeneQuest - service for identification of different pseudogene types in the human genome.

Ortutay C, Vihinen M.

BMC Bioinformatics. 2008 Jul 2;9:299. doi: 10.1186/1471-2105-9-299.

7.

Accessing the SEED genome databases via Web services API: tools for programmers.

Disz T, Akhter S, Cuevas D, Olson R, Overbeek R, Vonstein V, Stevens R, Edwards RA.

BMC Bioinformatics. 2010 Jun 14;11:319. doi: 10.1186/1471-2105-11-319.

8.
9.

Iterative gene prediction and pseudogene removal improves genome annotation.

van Baren MJ, Brent MR.

Genome Res. 2006 May;16(5):678-85.

10.

The genopolis microarray database.

Splendiani A, Brandizi M, Even G, Beretta O, Pavelka N, Pelizzola M, Mayhaus M, Foti M, Mauri G, Ricciardi-Castagnoli P.

BMC Bioinformatics. 2007 Mar 8;8 Suppl 1:S21.

11.

dictyBase, the model organism database for Dictyostelium discoideum.

Chisholm RL, Gaudet P, Just EM, Pilcher KE, Fey P, Merchant SN, Kibbe WA.

Nucleic Acids Res. 2006 Jan 1;34(Database issue):D423-7.

12.

Legume Resources: MtDB and Medicago.Org.

Retzel EF, Johnson JE, Crow JA, Lamblin AF, Paule CE.

Methods Mol Biol. 2007;406:261-74.

PMID:
18287697
13.

Tranche distributed repository and ProteomeCommons.org.

Smith BE, Hill JA, Gjukich MA, Andrews PC.

Methods Mol Biol. 2011;696:123-45. doi: 10.1007/978-1-60761-987-1_8.

PMID:
21063945
14.

Cross-species and cross-platform gene expression studies with the Bioconductor-compliant R package 'annotationTools'.

Kuhn A, Luthi-Carter R, Delorenzi M.

BMC Bioinformatics. 2008 Jan 17;9:26. doi: 10.1186/1471-2105-9-26.

15.

Biowep: a workflow enactment portal for bioinformatics applications.

Romano P, Bartocci E, Bertolini G, De Paoli F, Marra D, Mauri G, Merelli E, Milanesi L.

BMC Bioinformatics. 2007 Mar 8;8 Suppl 1:S19.

16.

DroSpeGe: rapid access database for new Drosophila species genomes.

Gilbert DG.

Nucleic Acids Res. 2007 Jan;35(Database issue):D480-5.

17.

The mouse genome database (MGD): new features facilitating a model system.

Eppig JT, Blake JA, Bult CJ, Kadin JA, Richardson JE; Mouse Genome Database Group.

Nucleic Acids Res. 2007 Jan;35(Database issue):D630-7. Epub 2006 Nov 29.

18.

Using the Ensembl genome server to browse genomic sequence data.

Fernández-Suárez XM, Schuster MK.

Curr Protoc Bioinformatics. 2007 Jan;Chapter 1:Unit 1.15. doi: 10.1002/0471250953.bi0115s16.

PMID:
18428779
19.

SMART 6: recent updates and new developments.

Letunic I, Doerks T, Bork P.

Nucleic Acids Res. 2009 Jan;37(Database issue):D229-32. doi: 10.1093/nar/gkn808. Epub 2008 Oct 31.

20.

BiomarkerDigger: a versatile disease proteome database and analysis platform for the identification of plasma cancer biomarkers.

Jeong SK, Kwon MS, Lee EY, Lee HJ, Cho SY, Kim H, Yoo JS, Omenn GS, Aebersold R, Hanash S, Paik YK.

Proteomics. 2009 Jul;9(14):3729-40. doi: 10.1002/pmic.200800593.

PMID:
19639590
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