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Results: 1 to 20 of 35

1.
2.

Transcriptome changes associated with anaerobic growth in Yersinia intermedia (ATCC29909).

Babujee L, Balakrishnan V, Kiley PJ, Glasner JD, Perna NT.

PLoS One. 2013 Oct 7;8(10):e76567. doi: 10.1371/journal.pone.0076567. eCollection 2013.

PMID:
24116118
[PubMed - in process]
Free PMC Article
3.

Evolution of the metabolic and regulatory networks associated with oxygen availability in two phytopathogenic enterobacteria.

Babujee L, Apodaca J, Balakrishnan V, Liss P, Kiley PJ, Charkowski AO, Glasner JD, Perna NT.

BMC Genomics. 2012 Mar 22;13:110. doi: 10.1186/1471-2164-13-110.

PMID:
22439737
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Using comparative genomics for inquiry-based learning to dissect virulence of Escherichia coli O157:H7 and Yersinia pestis.

Baumler DJ, Banta LM, Hung KF, Schwarz JA, Cabot EL, Glasner JD, Perna NT.

CBE Life Sci Educ. 2012 Spring;11(1):81-93. doi: 10.1187/cbe.10-04-0057.

PMID:
22383620
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

The evolution of metabolic networks of E. coli.

Baumler DJ, Peplinski RG, Reed JL, Glasner JD, Perna NT.

BMC Syst Biol. 2011 Nov 1;5:182. doi: 10.1186/1752-0509-5-182.

PMID:
22044664
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Genome sequence of the plant-pathogenic bacterium Dickeya dadantii 3937.

Glasner JD, Yang CH, Reverchon S, Hugouvieux-Cotte-Pattat N, Condemine G, Bohin JP, Van Gijsegem F, Yang S, Franza T, Expert D, Plunkett G 3rd, San Francisco MJ, Charkowski AO, Py B, Bell K, Rauscher L, Rodriguez-Palenzuela P, Toussaint A, Holeva MC, He SY, Douet V, Boccara M, Blanco C, Toth I, Anderson BD, Biehl BS, Mau B, Flynn SM, Barras F, Lindeberg M, Birch PR, Tsuyumu S, Shi X, Hibbing M, Yap MN, Carpentier M, Dassa E, Umehara M, Kim JF, Rusch M, Soni P, Mayhew GF, Fouts DE, Gill SR, Blattner FR, Keen NT, Perna NT.

J Bacteriol. 2011 Apr;193(8):2076-7. doi: 10.1128/JB.01513-10. Epub 2011 Jan 7.

PMID:
21217001
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Unifying themes in microbial associations with animal and plant hosts described using the gene ontology.

Torto-Alalibo T, Collmer CW, Gwinn-Giglio M, Lindeberg M, Meng S, Chibucos MC, Tseng TT, Lomax J, Biehl B, Ireland A, Bird D, Dean RA, Glasner JD, Perna N, Setubal JC, Collmer A, Tyler BM.

Microbiol Mol Biol Rev. 2010 Dec;74(4):479-503. doi: 10.1128/MMBR.00017-10. Review.

PMID:
21119014
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

chipD: a web tool to design oligonucleotide probes for high-density tiling arrays.

Dufour YS, Wesenberg GE, Tritt AJ, Glasner JD, Perna NT, Mitchell JC, Donohue TJ.

Nucleic Acids Res. 2010 Jul;38(Web Server issue):W321-5. doi: 10.1093/nar/gkq517. Epub 2010 Jun 6.

PMID:
20529880
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Annotation and overview of the Pseudomonas savastanoi pv. savastanoi NCPPB 3335 draft genome reveals the virulence gene complement of a tumour-inducing pathogen of woody hosts.

Rodríguez-Palenzuela P, Matas IM, Murillo J, López-Solanilla E, Bardaji L, Pérez-Martínez I, Rodríguez-Moskera ME, Penyalver R, López MM, Quesada JM, Biehl BS, Perna NT, Glasner JD, Cabot EL, Neeno-Eckwall E, Ramos C.

Environ Microbiol. 2010 Jun;12(6):1604-20. doi: 10.1111/j.1462-2920.2010.02207.x. Epub 2010 Apr 1.

PMID:
20370821
[PubMed - indexed for MEDLINE]
10.

Complete genome sequence of the plant pathogen Erwinia amylovora strain ATCC 49946.

Sebaihia M, Bocsanczy AM, Biehl BS, Quail MA, Perna NT, Glasner JD, DeClerck GA, Cartinhour S, Schneider DJ, Bentley SD, Parkhill J, Beer SV.

J Bacteriol. 2010 Apr;192(7):2020-1. doi: 10.1128/JB.00022-10. Epub 2010 Jan 29.

PMID:
20118253
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Reordering contigs of draft genomes using the Mauve aligner.

Rissman AI, Mau B, Biehl BS, Darling AE, Glasner JD, Perna NT.

Bioinformatics. 2009 Aug 15;25(16):2071-3. doi: 10.1093/bioinformatics/btp356. Epub 2009 Jun 10.

PMID:
19515959
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Text-mining of PubMed abstracts by natural language processing to create a public knowledge base on molecular mechanisms of bacterial enteropathogens.

Zaremba S, Ramos-Santacruz M, Hampton T, Shetty P, Fedorko J, Whitmore J, Greene JM, Perna NT, Glasner JD, Plunkett G 3rd, Shaker M, Pot D.

BMC Bioinformatics. 2009 Jun 10;10:177. doi: 10.1186/1471-2105-10-177.

PMID:
19515247
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Gene Ontology annotation highlights shared and divergent pathogenic strategies of type III effector proteins deployed by the plant pathogen Pseudomonas syringae pv tomato DC3000 and animal pathogenic Escherichia coli strains.

Lindeberg M, Biehl BS, Glasner JD, Perna NT, Collmer A, Collmer CW.

BMC Microbiol. 2009 Feb 19;9 Suppl 1:S4. doi: 10.1186/1471-2180-9-S1-S4. Review.

PMID:
19278552
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Niche-specificity and the variable fraction of the Pectobacterium pan-genome.

Glasner JD, Marquez-Villavicencio M, Kim HS, Jahn CE, Ma B, Biehl BS, Rissman AI, Mole B, Yi X, Yang CH, Dangl JL, Grant SR, Perna NT, Charkowski AO.

Mol Plant Microbe Interact. 2008 Dec;21(12):1549-60. doi: 10.1094/MPMI-21-12-1549.

PMID:
18986251
[PubMed - indexed for MEDLINE]
Free Article
15.

Host range and molecular phylogenies of the soft rot enterobacterial genera pectobacterium and dickeya.

Ma B, Hibbing ME, Kim HS, Reedy RM, Yedidia I, Breuer J, Breuer J, Glasner JD, Perna NT, Kelman A, Charkowski AO.

Phytopathology. 2007 Sep;97(9):1150-63. doi: 10.1094/PHYTO-97-9-1150.

PMID:
18944180
[PubMed]
Free Article
16.

Enteropathogen Resource Integration Center (ERIC): bioinformatics support for research on biodefense-relevant enterobacteria.

Glasner JD, Plunkett G 3rd, Anderson BD, Baumler DJ, Biehl BS, Burland V, Cabot EL, Darling AE, Mau B, Neeno-Eckwall EC, Pot D, Qiu Y, Rissman AI, Worzella S, Zaremba S, Fedorko J, Hampton T, Liss P, Rusch M, Shaker M, Shaull L, Shetty P, Thotakura S, Whitmore J, Blattner FR, Greene JM, Perna NT.

Nucleic Acids Res. 2008 Jan;36(Database issue):D519-23. Epub 2007 Nov 13.

PMID:
17999997
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Analyzing the dose-dependence of the Saccharomyces cerevisiae global transcriptional response to methyl methanesulfonate and ionizing radiation.

Benton MG, Somasundaram S, Glasner JD, Palecek SP.

BMC Genomics. 2006 Dec 1;7:305.

PMID:
17140446
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Genome-wide detection and analysis of homologous recombination among sequenced strains of Escherichia coli.

Mau B, Glasner JD, Darling AE, Perna NT.

Genome Biol. 2006;7(5):R44. Epub 2006 May 31.

PMID:
16737554
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

CGHScan: finding variable regions using high-density microarray comparative genomic hybridization data.

Anderson BD, Gilson MC, Scott AA, Biehl BS, Glasner JD, Rajashekara G, Splitter GA, Perna NT.

BMC Genomics. 2006 Apr 25;7:91.

PMID:
16638145
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Genomic mining for Aspergillus natural products.

Bok JW, Hoffmeister D, Maggio-Hall LA, Murillo R, Glasner JD, Keller NP.

Chem Biol. 2006 Jan;13(1):31-7.

PMID:
16426969
[PubMed - indexed for MEDLINE]
Free Article

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