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Items: 14

1.

A bagging-based correction for the mixture model estimator of population size.

Kuhnert R, Del Rio Vilas VJ, Gallagher J, Böhning D.

Biom J. 2008 Dec;50(6):993-1005. doi: 10.1002/bimj.200810485.

PMID:
19089886
2.

Comparative genomics: the bacterial pan-genome.

Tettelin H, Riley D, Cattuto C, Medini D.

Curr Opin Microbiol. 2008 Oct;11(5):472-7. Review.

PMID:
19086349
3.

Parametric models for estimating the number of classes.

Bunge J, Barger K.

Biom J. 2008 Dec;50(6):971-82. doi: 10.1002/bimj.200810452.

PMID:
19067331
4.

Genomics of bacteria and archaea: the emerging dynamic view of the prokaryotic world.

Koonin EV, Wolf YI.

Nucleic Acids Res. 2008 Dec;36(21):6688-719. doi: 10.1093/nar/gkn668. Epub 2008 Oct 23. Review.

5.

The pangenome structure of Escherichia coli: comparative genomic analysis of E. coli commensal and pathogenic isolates.

Rasko DA, Rosovitz MJ, Myers GS, Mongodin EF, Fricke WF, Gajer P, Crabtree J, Sebaihia M, Thomson NR, Chaudhuri R, Henderson IR, Sperandio V, Ravel J.

J Bacteriol. 2008 Oct;190(20):6881-93. doi: 10.1128/JB.00619-08. Epub 2008 Aug 1.

6.

A statistical toolbox for metagenomics: assessing functional diversity in microbial communities.

Schloss PD, Handelsman J.

BMC Bioinformatics. 2008 Jan 23;9:34. doi: 10.1186/1471-2105-9-34.

7.

Characterization of probiotic Escherichia coli isolates with a novel pan-genome microarray.

Willenbrock H, Hallin PF, Wassenaar TM, Ussery DW.

Genome Biol. 2007;8(12):R267.

8.
9.

Identification of genes subject to positive selection in uropathogenic strains of Escherichia coli: a comparative genomics approach.

Chen SL, Hung CS, Xu J, Reigstad CS, Magrini V, Sabo A, Blasiar D, Bieri T, Meyer RR, Ozersky P, Armstrong JR, Fulton RS, Latreille JP, Spieth J, Hooton TM, Mardis ER, Hultgren SJ, Gordon JI.

Proc Natl Acad Sci U S A. 2006 Apr 11;103(15):5977-82. Epub 2006 Apr 3.

10.

Large-scale prokaryotic gene prediction and comparison to genome annotation.

Nielsen P, Krogh A.

Bioinformatics. 2005 Dec 15;21(24):4322-9. Epub 2005 Oct 25.

PMID:
16249266
11.

The microbial pan-genome.

Medini D, Donati C, Tettelin H, Masignani V, Rappuoli R.

Curr Opin Genet Dev. 2005 Dec;15(6):589-94. Epub 2005 Sep 26. Review.

PMID:
16185861
12.

Genome analysis of multiple pathogenic isolates of Streptococcus agalactiae: implications for the microbial "pan-genome".

Tettelin H, Masignani V, Cieslewicz MJ, Donati C, Medini D, Ward NL, Angiuoli SV, Crabtree J, Jones AL, Durkin AS, Deboy RT, Davidsen TM, Mora M, Scarselli M, Margarit y Ros I, Peterson JD, Hauser CR, Sundaram JP, Nelson WC, Madupu R, Brinkac LM, Dodson RJ, Rosovitz MJ, Sullivan SA, Daugherty SC, Haft DH, Selengut J, Gwinn ML, Zhou L, Zafar N, Khouri H, Radune D, Dimitrov G, Watkins K, O'Connor KJ, Smith S, Utterback TR, White O, Rubens CE, Grandi G, Madoff LC, Kasper DL, Telford JL, Wessels MR, Rappuoli R, Fraser CM.

Proc Natl Acad Sci U S A. 2005 Sep 27;102(39):13950-5. Epub 2005 Sep 19. Erratum in: Proc Natl Acad Sci U S A. 2005 Nov 8;102(45):16530.

13.

EasyGene--a prokaryotic gene finder that ranks ORFs by statistical significance.

Larsen TS, Krogh A.

BMC Bioinformatics. 2003 Jun 3;4:21. Epub 2003 Jun 3.

14.

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