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Results: 1 to 20 of 99

1.

InSilico DB genomic datasets hub: an efficient starting point for analyzing genome-wide studies in GenePattern, Integrative Genomics Viewer, and R/Bioconductor.

Coletta A, Molter C, Duqué R, Steenhoff D, Taminau J, de Schaetzen V, Meganck S, Lazar C, Venet D, Detours V, Nowé A, Bersini H, Weiss Solís DY.

Genome Biol. 2012 Nov 18;13(11):R104. doi: 10.1186/gb-2012-13-11-r104.

PMID:
23158523
[PubMed - in process]
Free PMC Article
2.

inSilicoDb: an R/Bioconductor package for accessing human Affymetrix expert-curated datasets from GEO.

Taminau J, Steenhoff D, Coletta A, Meganck S, Lazar C, de Schaetzen V, Duque R, Molter C, Bersini H, Nowé A, Weiss Solís DY.

Bioinformatics. 2011 Nov 15;27(22):3204-5. doi: 10.1093/bioinformatics/btr529. Epub 2011 Sep 21.

PMID:
21937664
[PubMed - indexed for MEDLINE]
Free Article
3.

Unlocking the potential of publicly available microarray data using inSilicoDb and inSilicoMerging R/Bioconductor packages.

Taminau J, Meganck S, Lazar C, Steenhoff D, Coletta A, Molter C, Duque R, de Schaetzen V, Weiss Solís DY, Bersini H, Nowé A.

BMC Bioinformatics. 2012 Dec 24;13:335. doi: 10.1186/1471-2105-13-335.

PMID:
23259851
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Editorial: protein systems biology: method, regulation, and network.

Chen Q, Chen M.

Curr Protein Pept Sci. 2014;15(6):519-21.

PMID:
25135673
[PubMed - in process]
5.

Web-based visual analysis for high-throughput genomics.

Goecks J, Eberhard C, Too T; Galaxy Team, Nekrutenko A, Taylor J.

BMC Genomics. 2013 Jun 13;14:397. doi: 10.1186/1471-2164-14-397.

PMID:
23758618
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

GenePattern flow cytometry suite.

Spidlen J, Barsky A, Breuer K, Carr P, Nazaire MD, Hill BA, Qian Y, Liefeld T, Reich M, Mesirov JP, Wilkinson P, Scheuermann RH, Sekaly RP, Brinkman RR.

Source Code Biol Med. 2013 Jul 3;8(1):14. doi: 10.1186/1751-0473-8-14.

PMID:
23822732
[PubMed]
Free PMC Article
7.

The Risa R/Bioconductor package: integrative data analysis from experimental metadata and back again.

González-Beltrán A, Neumann S, Maguire E, Sansone SA, Rocca-Serra P.

BMC Bioinformatics. 2014;15 Suppl 1:S11. doi: 10.1186/1471-2105-15-S1-S11. Epub 2014 Jan 10.

PMID:
24564732
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Genomics Portals: integrative web-platform for mining genomics data.

Shinde K, Phatak M, Johannes FM, Chen J, Li Q, Vineet JK, Hu Z, Ghosh K, Meller J, Medvedovic M.

BMC Genomics. 2010 Jan 13;11:27. doi: 10.1186/1471-2164-11-27.

PMID:
20070909
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

canEvolve: a web portal for integrative oncogenomics.

Samur MK, Yan Z, Wang X, Cao Q, Munshi NC, Li C, Shah PK.

PLoS One. 2013;8(2):e56228. doi: 10.1371/journal.pone.0056228. Epub 2013 Feb 13.

PMID:
23418540
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Batch effect removal methods for microarray gene expression data integration: a survey.

Lazar C, Meganck S, Taminau J, Steenhoff D, Coletta A, Molter C, Weiss-Solís DY, Duque R, Bersini H, Nowé A.

Brief Bioinform. 2013 Jul;14(4):469-90. doi: 10.1093/bib/bbs037. Epub 2012 Jul 31.

PMID:
22851511
[PubMed - indexed for MEDLINE]
11.

Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration.

Thorvaldsdóttir H, Robinson JT, Mesirov JP.

Brief Bioinform. 2013 Mar;14(2):178-92. doi: 10.1093/bib/bbs017. Epub 2012 Apr 19.

PMID:
22517427
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Statistical Viewer: a tool to upload and integrate linkage and association data as plots displayed within the Ensembl genome browser.

Stenger JE, Xu H, Haynes C, Hauser ER, Pericak-Vance M, Goldschmidt-Clermont PJ, Vance JM.

BMC Bioinformatics. 2005 Apr 12;6:95.

PMID:
15826305
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

The MetabolomeExpress Project: enabling web-based processing, analysis and transparent dissemination of GC/MS metabolomics datasets.

Carroll AJ, Badger MR, Harvey Millar A.

BMC Bioinformatics. 2010 Jul 14;11:376. doi: 10.1186/1471-2105-11-376.

PMID:
20626915
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Genephony: a knowledge management tool for genome-wide research.

Nuzzo A, Riva A.

BMC Bioinformatics. 2009 Sep 3;10:278. doi: 10.1186/1471-2105-10-278.

PMID:
19728881
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Bionimbus: a cloud for managing, analyzing and sharing large genomics datasets.

Heath AP, Greenway M, Powell R, Spring J, Suarez R, Hanley D, Bandlamudi C, McNerney ME, White KP, Grossman RL.

J Am Med Inform Assoc. 2014 Jan 24. doi: 10.1136/amiajnl-2013-002155. [Epub ahead of print]

PMID:
24464852
[PubMed - as supplied by publisher]
16.

GEMBASSY: an EMBOSS associated software package for comprehensive genome analyses.

Itaya H, Oshita K, Arakawa K, Tomita M.

Source Code Biol Med. 2013 Aug 29;8(1):17. doi: 10.1186/1751-0473-8-17.

PMID:
23987304
[PubMed]
Free PMC Article
17.

Next generation tools for genomic data generation, distribution, and visualization.

Nix DA, Di Sera TL, Dalley BK, Milash BA, Cundick RM, Quinn KS, Courdy SJ.

BMC Bioinformatics. 2010 Sep 9;11:455. doi: 10.1186/1471-2105-11-455.

PMID:
20828407
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

SynTView - an interactive multi-view genome browser for next-generation comparative microorganism genomics.

Lechat P, Souche E, Moszer I.

BMC Bioinformatics. 2013 Sep 22;14:277. doi: 10.1186/1471-2105-14-277.

PMID:
24053737
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

An integrated ChIP-seq analysis platform with customizable workflows.

Giannopoulou EG, Elemento O.

BMC Bioinformatics. 2011 Jul 7;12:277. doi: 10.1186/1471-2105-12-277.

PMID:
21736739
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

adegenet 1.3-1: new tools for the analysis of genome-wide SNP data.

Jombart T, Ahmed I.

Bioinformatics. 2011 Nov 1;27(21):3070-1. doi: 10.1093/bioinformatics/btr521. Epub 2011 Sep 16.

PMID:
21926124
[PubMed - indexed for MEDLINE]
Free PMC Article

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