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An analysis of the Sargasso Sea resource and the consequences for database composition.

Tress ML, Cozzetto D, Tramontano A, Valencia A.

BMC Bioinformatics. 2006 Apr 19;7:213.PMID: 16623953 [PubMed - indexed for MEDLINE]Related articlesFree article

Blast sampling for structural and functional analyses.

Friedrich A, Ripp R, Garnier N, Bettler E, Deléage G, Poch O, Moulinier L.

BMC Bioinformatics. 2007 Feb 23;8:62.PMID: 17319945 [PubMed - indexed for MEDLINE]Related articlesFree article

The microbial selenoproteome of the Sargasso Sea.

Zhang Y, Fomenko DE, Gladyshev VN.

Genome Biol. 2005;6(4):R37. Epub 2005 Mar 29.PMID: 15833124 [PubMed - indexed for MEDLINE]Related articlesFree article

Fishing for biodiversity: novel methanopterin-linked C transfer genes deduced from the Sargasso Sea metagenome.

Kalyuzhnaya MG, Nercessian O, Lapidus A, Chistoserdova L.

Environ Microbiol. 2005 Dec;7(12):1909-16.PMID: 16309389 [PubMed - indexed for MEDLINE]Related articles

Improvements of high-throughput culturing yielded novel SAR11 strains and other abundant marine bacteria from the Oregon coast and the Bermuda Atlantic Time Series study site.

Stingl U, Tripp HJ, Giovannoni SJ.

ISME J. 2007 Aug;1(4):361-71. Epub 2007 Jul 5.PMID: 18043647 [PubMed - indexed for MEDLINE]Related articles

MannDB - a microbial database of automated protein sequence analyses and evidence integration for protein characterization.

Zhou CL, Lam MW, Smith JR, Zemla AT, Dyer MD, Kuczmarski TA, Vitalis EA, Slezak TR.

BMC Bioinformatics. 2006 Oct 17;7:459.PMID: 17044936 [PubMed - indexed for MEDLINE]Related articlesFree article

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.PMID: 17445272 [PubMed - indexed for MEDLINE]Related articlesFree article

ProtRepeatsDB: a database of amino acid repeats in genomes.

Kalita MK, Ramasamy G, Duraisamy S, Chauhan VS, Gupta D.

BMC Bioinformatics. 2006 Jul 7;7:336.PMID: 16827924 [PubMed - indexed for MEDLINE]Related articlesFree article

MetaGene: prokaryotic gene finding from environmental genome shotgun sequences.

Noguchi H, Park J, Takagi T.

Nucleic Acids Res. 2006;34(19):5623-30. Epub 2006 Oct 5.PMID: 17028096 [PubMed - indexed for MEDLINE]Related articlesFree article

Non-coding sequence retrieval system for comparative genomic analysis of gene regulatory elements.

Doh ST, Zhang Y, Temple MH, Cai L.

BMC Bioinformatics. 2007 Mar 15;8:94.PMID: 17362514 [PubMed - indexed for MEDLINE]Related articlesFree article

Collembase: a repository for springtail genomics and soil quality assessment.

Timmermans MJ, de Boer ME, Nota B, de Boer TE, Mariën J, Klein-Lankhorst RM, van Straalen NM, Roelofs D.

BMC Genomics. 2007 Sep 27;8:341.PMID: 17900339 [PubMed - indexed for MEDLINE]Related articlesFree article

Advances in the Exon-Intron Database (EID).

Shepelev V, Fedorov A.

Brief Bioinform. 2006 Jun;7(2):178-85. Epub 2006 Mar 9. Review.PMID: 16772261 [PubMed - indexed for MEDLINE]Related articlesFree article

The marine viromes of four oceanic regions.

Angly FE, Felts B, Breitbart M, Salamon P, Edwards RA, Carlson C, Chan AM, Haynes M, Kelley S, Liu H, Mahaffy JM, Mueller JE, Nulton J, Olson R, Parsons R, Rayhawk S, Suttle CA, Rohwer F.

PLoS Biol. 2006 Nov;4(11):e368.PMID: 17090214 [PubMed - indexed for MEDLINE]Related articlesFree article

Miraculous catch of iron-sulfur protein sequences in the Sargasso Sea.

Meyer J.

FEBS Lett. 2004 Jul 16;570(1-3):1-6. Review.PMID: 15251429 [PubMed - indexed for MEDLINE]Related articles

Predicting mostly disordered proteins by using structure-unknown protein data.

Shimizu K, Muraoka Y, Hirose S, Tomii K, Noguchi T.

BMC Bioinformatics. 2007 Mar 6;8:78.PMID: 17338828 [PubMed - indexed for MEDLINE]Related articlesFree article

Screening the Sargasso Sea metagenome for data to investigate genome evolution in Ostreococcus (Prasinophyceae, Chlorophyta).

Piganeau G, Moreau H.

Gene. 2007 Dec 30;406(1-2):184-90. Epub 2007 Oct 3.PMID: 17961934 [PubMed - indexed for MEDLINE]Related articles

Rule-based knowledge aggregation for large-scale protein sequence analysis of influenza A viruses.

Miotto O, Tan TW, Brusic V.

BMC Bioinformatics. 2008;9 Suppl 1:S7.PMID: 18315860 [PubMed - indexed for MEDLINE]Related articlesFree article

Novel phylogenetic studies of genomic sequence fragments derived from uncultured microbe mixtures in environmental and clinical samples.

Abe T, Sugawara H, Kinouchi M, Kanaya S, Ikemura T.

DNA Res. 2005;12(5):281-90. Epub 2006 Jan 10.PMID: 16769690 [PubMed - indexed for MEDLINE]Related articlesFree article

UbiProt: a database of ubiquitylated proteins.

Chernorudskiy AL, Garcia A, Eremin EV, Shorina AS, Kondratieva EV, Gainullin MR.

BMC Bioinformatics. 2007 Apr 18;8:126.PMID: 17442109 [PubMed - indexed for MEDLINE]Related articlesFree article

Micro-Mar: a database for dynamic representation of marine microbial biodiversity.

Pushker R, D'Auria G, Alba-Casado JC, Rodríguez-Valera F.

BMC Bioinformatics. 2005 Sep 9;6:222.PMID: 16153293 [PubMed - indexed for MEDLINE]Related articlesFree article