Overbeek R - Search Results

1

Assembly, Annotation, and Comparative Genomics in PATRIC, the All Bacterial Bioinformatics Resource Center.

Wattam AR, Brettin T, Davis JJ, Gerdes S, Kenyon R, Machi D, Mao C, Olson R, Overbeek R, Pusch GD, Shukla MP, Stevens R, Vonstein V, Warren A, Xia F, Yoo H. Wattam AR, et al. Among authors: overbeek r. Methods Mol Biol. 2018;1704:79-101. doi: 10.1007/978-1-4939-7463-4_4. Methods Mol Biol. 2018. PMID: 29277864 Review.

2

The use of gene clusters to infer functional coupling.

Overbeek R, Fonstein M, D'Souza M, Pusch GD, Maltsev N. Overbeek R, et al. Proc Natl Acad Sci U S A. 1999 Mar 16;96(6):2896-901. doi: 10.1073/pnas.96.6.2896. Proc Natl Acad Sci U S A. 1999. PMID: 10077608 Free PMC article.

3

WIT: integrated system for high-throughput genome sequence analysis and metabolic reconstruction.

Overbeek R, Larsen N, Pusch GD, D'Souza M, Selkov E Jr, Kyrpides N, Fonstein M, Maltsev N, Selkov E. Overbeek R, et al. Nucleic Acids Res. 2000 Jan 1;28(1):123-5. doi: 10.1093/nar/28.1.123. Nucleic Acids Res. 2000. PMID: 10592199 Free PMC article.

4

Functional analysis of gapped microbial genomes: amino acid metabolism of Thiobacillus ferrooxidans.

Selkov E, Overbeek R, Kogan Y, Chu L, Vonstein V, Holmes D, Silver S, Haselkorn R, Fonstein M. Selkov E, et al. Among authors: overbeek r. Proc Natl Acad Sci U S A. 2000 Mar 28;97(7):3509-14. doi: 10.1073/pnas.97.7.3509. Proc Natl Acad Sci U S A. 2000. PMID: 10737802 Free PMC article.

5

Analysis of the Thermotoga maritima genome combining a variety of sequence similarity and genome context tools.

Kyrpides NC, Ouzounis CA, Iliopoulos I, Vonstein V, Overbeek R. Kyrpides NC, et al. Among authors: overbeek r. Nucleic Acids Res. 2000 Nov 15;28(22):4573-6. doi: 10.1093/nar/28.22.4573. Nucleic Acids Res. 2000. PMID: 11071948 Free PMC article.

6

Archaeal shikimate kinase, a new member of the GHMP-kinase family.

Daugherty M, Vonstein V, Overbeek R, Osterman A. Daugherty M, et al. Among authors: overbeek r. J Bacteriol. 2001 Jan;183(1):292-300. doi: 10.1128/JB.183.1.292-300.2001. J Bacteriol. 2001. PMID: 11114929 Free PMC article.

7

Use of contiguity on the chromosome to predict functional coupling.

Overbeek R, Fonstein M, D'Souza M, Pusch GD, Maltsev N. Overbeek R, et al. In Silico Biol. 1999;1(2):93-108. In Silico Biol. 1999. PMID: 11471247

8

The ERGO genome analysis and discovery system.

Overbeek R, Larsen N, Walunas T, D'Souza M, Pusch G, Selkov E Jr, Liolios K, Joukov V, Kaznadzey D, Anderson I, Bhattacharyya A, Burd H, Gardner W, Hanke P, Kapatral V, Mikhailova N, Vasieva O, Osterman A, Vonstein V, Fonstein M, Ivanova N, Kyrpides N. Overbeek R, et al. Nucleic Acids Res. 2003 Jan 1;31(1):164-71. doi: 10.1093/nar/gkg148. Nucleic Acids Res. 2003. PMID: 12519973 Free PMC article.

9

Detection of lateral gene transfer events in the prokaryotic tRNA synthetases by the ratios of evolutionary distances method.

Farahi K, Pusch GD, Overbeek R, Whitman WB. Farahi K, et al. Among authors: overbeek r. J Mol Evol. 2004 May;58(5):615-31. doi: 10.1007/s00239-004-2582-2. J Mol Evol. 2004. PMID: 15170264

10

Comparative genome analysis of Bacillus cereus group genomes with Bacillus subtilis.

Anderson I, Sorokin A, Kapatral V, Reznik G, Bhattacharya A, Mikhailova N, Burd H, Joukov V, Kaznadzey D, Walunas T, Markd'Souza, Larsen N, Pusch G, Liolios K, Grechkin Y, Lapidus A, Goltsman E, Chu L, Fonstein M, Ehrlich SD, Overbeek R, Kyrpides N, Ivanova N. Anderson I, et al. Among authors: overbeek r. FEMS Microbiol Lett. 2005 Sep 15;250(2):175-84. doi: 10.1016/j.femsle.2005.07.008. FEMS Microbiol Lett. 2005. PMID: 16099605 Free article.

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