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Probability landscapes for integrative genomics.

Lesne A, Benecke A.

Theor Biol Med Model. 2008 May 20;5:9.PMID: 18492240 [PubMed - indexed for MEDLINE]Related articlesFree article

Feature context-dependency and complexity-reduction in probability landscapes for integrative genomics.

Lesne A, Benecke A.

Theor Biol Med Model. 2008 Sep 10;5:21.PMID: 18783599 [PubMed - indexed for MEDLINE]Related articlesFree article

xGDB: open-source computational infrastructure for the integrated evaluation and analysis of genome features.

Schlueter SD, Wilkerson MD, Dong Q, Brendel V.

Genome Biol. 2006;7(11):R111.PMID: 17116260 [PubMed - indexed for MEDLINE]Related articlesFree article

CoryneCenter - an online resource for the integrated analysis of corynebacterial genome and transcriptome data.

Neuweger H, Baumbach J, Albaum S, Bekel T, Dondrup M, Hüser AT, Kalinowski J, Oehm S, Pühler A, Rahmann S, Weile J, Goesmann A.

BMC Syst Biol. 2007 Nov 22;1:55.PMID: 18034885 [PubMed - indexed for MEDLINE]Related articlesFree article

GOing from functional genomics to biological significance.

McCarthy FM, Bridges SM, Burgess SC.

Cytogenet Genome Res. 2007;117(1-4):278-87.PMID: 17675869 [PubMed - indexed for MEDLINE]Related articles

Analysis of Aspergillus nidulans metabolism at the genome-scale.

David H, Ozçelik IS, Hofmann G, Nielsen J.

BMC Genomics. 2008 Apr 11;9:163.PMID: 18405346 [PubMed - indexed for MEDLINE]Related articlesFree article

A genome-wide 20 K citrus microarray for gene expression analysis.

Martinez-Godoy MA, Mauri N, Juarez J, Marques MC, Santiago J, Forment J, Gadea J.

BMC Genomics. 2008 Jul 3;9:318.PMID: 18598343 [PubMed - indexed for MEDLINE]Related articlesFree article

Prediction of genomic functional elements.

Jones SJ.

Annu Rev Genomics Hum Genet. 2006;7:315-38. Review.PMID: 16824019 [PubMed - indexed for MEDLINE]Related articles

GPAT: retrieval of genomic annotation from large genomic position datasets.

Krebs A, Frontini M, Tora L.

BMC Bioinformatics. 2008 Dec 15;9:533.PMID: 19077303 [PubMed - indexed for MEDLINE]Related articlesFree article

Complete nucleotide sequence of the Cryptomeria japonica D. Don. chloroplast genome and comparative chloroplast genomics: diversified genomic structure of coniferous species.

Hirao T, Watanabe A, Kurita M, Kondo T, Takata K.

BMC Plant Biol. 2008 Jun 23;8:70.PMID: 18570682 [PubMed - indexed for MEDLINE]Related articlesFree article

Probabilistic inference of transcription factor binding from multiple data sources.

Lähdesmäki H, Rust AG, Shmulevich I.

PLoS One. 2008 Mar 26;3(3):e1820.PMID: 18364997 [PubMed - indexed for MEDLINE]Related articlesFree article

Proteogenomics: needs and roles to be filled by proteomics in genome annotation.

Ansong C, Purvine SO, Adkins JN, Lipton MS, Smith RD.

Brief Funct Genomic Proteomic. 2008 Jan;7(1):50-62. Epub 2008 Mar 10. Review.PMID: 18334489 [PubMed - indexed for MEDLINE]Related articlesFree article

MoccaDB - an integrative database for functional, comparative and diversity studies in the Rubiaceae family.

Plechakova O, Tranchant-Dubreuil C, Benedet F, Couderc M, Tinaut A, Viader V, De Block P, Hamon P, Campa C, de Kochko A, Hamon S, Poncet V.

BMC Plant Biol. 2009 Sep 29;9:123.PMID: 19788737 [PubMed - indexed for MEDLINE]Related articlesFree article

GOrilla: a tool for discovery and visualization of enriched GO terms in ranked gene lists.

Eden E, Navon R, Steinfeld I, Lipson D, Yakhini Z.

BMC Bioinformatics. 2009 Feb 3;10:48.PMID: 19192299 [PubMed - indexed for MEDLINE]Related articlesFree article

Large-scale Gene Ontology analysis of plant transcriptome-derived sequences retrieved by AFLP technology.

Botton A, Galla G, Conesa A, Bachem C, Ramina A, Barcaccia G.

BMC Genomics. 2008 Jul 24;9:347.PMID: 18652646 [PubMed - indexed for MEDLINE]Related articlesFree article

Genome-wide survey of allele-specific splicing in humans.

Nembaware V, Lupindo B, Schouest K, Spillane C, Scheffler K, Seoighe C.

BMC Genomics. 2008 Jun 2;9:265.PMID: 18518984 [PubMed - indexed for MEDLINE]Related articlesFree article

Evolution of regulatory sequences in 12 Drosophila species.

Kim J, He X, Sinha S.

PLoS Genet. 2009 Jan;5(1):e1000330. Epub 2009 Jan 9.PMID: 19132088 [PubMed - indexed for MEDLINE]Related articlesFree article

Stochastic models of sequence evolution including insertion-deletion events.

Miklós I, Novák A, Satija R, Lyngsø R, Hein J.

Stat Methods Med Res. 2009 Oct;18(5):453-85. Epub 2009 Feb 16.PMID: 19221170 [PubMed - indexed for MEDLINE]Related articles

The Sequence Ontology: a tool for the unification of genome annotations.

Eilbeck K, Lewis SE, Mungall CJ, Yandell M, Stein L, Durbin R, Ashburner M.

Genome Biol. 2005;6(5):R44. Epub 2005 Apr 29.PMID: 15892872 [PubMed - indexed for MEDLINE]Related articlesFree article

Genome-scale cluster analysis of replicated microarrays using shrinkage correlation coefficient.

Yao J, Chang C, Salmi ML, Hung YS, Loraine A, Roux SJ.

BMC Bioinformatics. 2008 Jun 18;9:288.PMID: 18564431 [PubMed - indexed for MEDLINE]Related articlesFree article