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Items: 1 to 20 of 94

1.

Annotation of bacterial and archaeal genomes: improving accuracy and consistency.

Overbeek R, Bartels D, Vonstein V, Meyer F.

Chem Rev. 2007 Aug;107(8):3431-47. Epub 2007 Jul 21. Review. No abstract available.

PMID:
17658903
2.

AlterORF: a database of alternate open reading frames.

Pedroso I, Rivera G, Lazo F, Chacón M, Ossandón F, Veloso FA, Holmes DS.

Nucleic Acids Res. 2008 Jan;36(Database issue):D517-8. Epub 2007 Dec 20.

3.

Genome Update: annotation quality in sequenced microbial genomes.

Ussery DW, Hallin PF.

Microbiology. 2004 Jul;150(Pt 7):2015-7. No abstract available.

PMID:
15256543
4.

ABCdb: an online resource for ABC transporter repertories from sequenced archaeal and bacterial genomes.

Fichant G, Basse MJ, Quentin Y.

FEMS Microbiol Lett. 2006 Mar;256(2):333-9.

5.

A novel common triplet profile for GC-rich prokaryotic genomes.

Zhang SH, Wang L.

Genomics. 2011 May;97(5):330-1. doi: 10.1016/j.ygeno.2011.02.005. Epub 2011 Feb 12. No abstract available.

6.

Towards multidimensional genome annotation.

Reed JL, Famili I, Thiele I, Palsson BO.

Nat Rev Genet. 2006 Feb;7(2):130-41. Review.

PMID:
16418748
7.

MED: a new non-supervised gene prediction algorithm for bacterial and archaeal genomes.

Zhu H, Hu GQ, Yang YF, Wang J, She ZS.

BMC Bioinformatics. 2007 Mar 16;8:97.

8.

[Metagenomics: a trip to the stars].

Grasso D.

Rev Argent Microbiol. 2006 Oct-Dec;38(4):189. Spanish. No abstract available.

PMID:
17370570
9.

Robust determinants of thermostability highlighted by a codon frequency index capable of discriminating thermophilic from mesophilic genomes.

Montanucci L, Martelli PL, Fariselli P, Casadio R.

J Proteome Res. 2007 Jul;6(7):2502-8. Epub 2007 May 26.

PMID:
17530792
10.

Sampling of microbial diversity by complete genomes.

Galperin MY.

Environ Microbiol. 2006 Aug;8(8):1313-7. No abstract available.

PMID:
16872395
11.

Reliability and applications of statistical methods based on oligonucleotide frequencies in bacterial and archaeal genomes.

Bohlin J, Skjerve E, Ussery DW.

BMC Genomics. 2008 Feb 28;9:104. doi: 10.1186/1471-2164-9-104.

12.

A hidden reservoir of integrative elements is the major source of recently acquired foreign genes and ORFans in archaeal and bacterial genomes.

Cortez D, Forterre P, Gribaldo S.

Genome Biol. 2009;10(6):R65. doi: 10.1186/gb-2009-10-6-r65. Epub 2009 Jun 16.

13.

The mystery of two straight lines in bacterial genome statistics.

Gorban AN, Zinovyev AY.

Bull Math Biol. 2007 Oct;69(7):2429-42. Epub 2007 Jun 19.

PMID:
17577600
14.

Gene3D: comprehensive structural and functional annotation of genomes.

Yeats C, Lees J, Reid A, Kellam P, Martin N, Liu X, Orengo C.

Nucleic Acids Res. 2008 Jan;36(Database issue):D414-8. Epub 2007 Nov 21.

15.

The integrated microbial genomes (IMG) system in 2007: data content and analysis tool extensions.

Markowitz VM, Szeto E, Palaniappan K, Grechkin Y, Chu K, Chen IM, Dubchak I, Anderson I, Lykidis A, Mavromatis K, Ivanova NN, Kyrpides NC.

Nucleic Acids Res. 2008 Jan;36(Database issue):D528-33. Epub 2007 Oct 12.

16.

GC content and genome length in Chargaff compliant genomes.

Mitchell D.

Biochem Biophys Res Commun. 2007 Feb 2;353(1):207-10. Epub 2006 Dec 11.

PMID:
17173863
17.

Annotation, comparison and databases for hundreds of bacterial genomes.

Médigue C, Moszer I.

Res Microbiol. 2007 Dec;158(10):724-36. Epub 2007 Oct 6. Review.

PMID:
18031997
18.

A database of phylogenetically atypical genes in archaeal and bacterial genomes, identified using the DarkHorse algorithm.

Podell S, Gaasterland T, Allen EE.

BMC Bioinformatics. 2008 Oct 7;9:419. doi: 10.1186/1471-2105-9-419.

19.

PSAT: a web tool to compare genomic neighborhoods of multiple prokaryotic genomes.

Fong C, Rohmer L, Radey M, Wasnick M, Brittnacher MJ.

BMC Bioinformatics. 2008 Mar 26;9:170. doi: 10.1186/1471-2105-9-170.

20.

PEDANT covers all complete RefSeq genomes.

Walter MC, Rattei T, Arnold R, Güldener U, Münsterkötter M, Nenova K, Kastenmüller G, Tischler P, Wölling A, Volz A, Pongratz N, Jost R, Mewes HW, Frishman D.

Nucleic Acids Res. 2009 Jan;37(Database issue):D408-11. doi: 10.1093/nar/gkn749. Epub 2008 Oct 21.

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