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Items: 1 to 50 of 58

1.

Complete Genome Sequence of Dickeya dianthicola ME23, a Pathogen Causing Blackleg and Soft Rot Diseases of Potato.

Ma X, Perna NT, Glasner JD, Hao J, Johnson S, Nasaruddin AS, Charkowski AO, Wu S, Fei Z, Perry KL, Stodghill P, Swingle B.

Microbiol Resour Announc. 2019 Feb 14;8(7). pii: e01526-18. doi: 10.1128/MRA.01526-18. eCollection 2019 Feb.

2.

Adjusting microbiome profiles for differences in microbial load by spike-in bacteria.

Stämmler F, Gläsner J, Hiergeist A, Holler E, Weber D, Oefner PJ, Gessner A, Spang R.

Microbiome. 2016 Jun 21;4(1):28. doi: 10.1186/s40168-016-0175-0.

3.

Analysis of factors contributing to variation in the C57BL/6J fecal microbiota across German animal facilities.

Rausch P, Basic M, Batra A, Bischoff SC, Blaut M, Clavel T, Gläsner J, Gopalakrishnan S, Grassl GA, Günther C, Haller D, Hirose M, Ibrahim S, Loh G, Mattner J, Nagel S, Pabst O, Schmidt F, Siegmund B, Strowig T, Volynets V, Wirtz S, Zeissig S, Zeissig Y, Bleich A, Baines JF.

Int J Med Microbiol. 2016 Aug;306(5):343-355. doi: 10.1016/j.ijmm.2016.03.004. Epub 2016 Mar 15.

4.

CD83 Modulates B Cell Activation and Germinal Center Responses.

Krzyzak L, Seitz C, Urbat A, Hutzler S, Ostalecki C, Gläsner J, Hiergeist A, Gessner A, Winkler TH, Steinkasserer A, Nitschke L.

J Immunol. 2016 May 1;196(9):3581-94. doi: 10.4049/jimmunol.1502163. Epub 2016 Mar 16.

5.

Socs36E Controls Niche Competition by Repressing MAPK Signaling in the Drosophila Testis.

Amoyel M, Anderson J, Suisse A, Glasner J, Bach EA.

PLoS Genet. 2016 Jan 25;12(1):e1005815. doi: 10.1371/journal.pgen.1005815. eCollection 2016 Jan.

6.

Analyses of Intestinal Microbiota: Culture versus Sequencing.

Hiergeist A, Gläsner J, Reischl U, Gessner A.

ILAR J. 2015;56(2):228-40. doi: 10.1093/ilar/ilv017. Review.

PMID:
26323632
7.

Staphylococcus aureus Infection in Humanized Mice: A New Model to Study Pathogenicity Associated With Human Immune Response.

Knop J, Hanses F, Leist T, Archin NM, Buchholz S, Gläsner J, Gessner A, Wege AK.

J Infect Dis. 2015 Aug 1;212(3):435-44. doi: 10.1093/infdis/jiv073. Epub 2015 Feb 5.

PMID:
25657257
8.

Analysis of the Phlebiopsis gigantea genome, transcriptome and secretome provides insight into its pioneer colonization strategies of wood.

Hori C, Ishida T, Igarashi K, Samejima M, Suzuki H, Master E, Ferreira P, Ruiz-Dueñas FJ, Held B, Canessa P, Larrondo LF, Schmoll M, Druzhinina IS, Kubicek CP, Gaskell JA, Kersten P, St John F, Glasner J, Sabat G, Splinter BonDurant S, Syed K, Yadav J, Mgbeahuruike AC, Kovalchuk A, Asiegbu FO, Lackner G, Hoffmeister D, Rencoret J, Gutiérrez A, Sun H, Lindquist E, Barry K, Riley R, Grigoriev IV, Henrissat B, Kües U, Berka RM, Martínez AT, Covert SF, Blanchette RA, Cullen D.

PLoS Genet. 2014 Dec 4;10(12):e1004759. doi: 10.1371/journal.pgen.1004759. eCollection 2014 Dec.

10.

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.

11.

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.

12.

Differential expression of iron acquisition genes by Brucella melitensis and Brucella canis during macrophage infection.

Eskra L, Covert J, Glasner J, Splitter G.

PLoS One. 2012;7(3):e31747. doi: 10.1371/journal.pone.0031747. Epub 2012 Mar 5.

13.

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.

14.

JAB1 is essential for B cell development and germinal center formation and inversely regulates Fas ligand and Bcl6 expression.

Sitte S, Gläsner J, Jellusova J, Weisel F, Panattoni M, Pardi R, Gessner A.

J Immunol. 2012 Mar 15;188(6):2677-86. doi: 10.4049/jimmunol.1101455. Epub 2012 Feb 10.

15.

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.

16.

Toll-like receptor activation and hypoxia use distinct signaling pathways to stabilize hypoxia-inducible factor 1α (HIF1A) and result in differential HIF1A-dependent gene expression.

Jantsch J, Wiese M, Schödel J, Castiglione K, Gläsner J, Kolbe S, Mole D, Schleicher U, Eckardt KU, Hensel M, Lang R, Bogdan C, Schnare M, Willam C.

J Leukoc Biol. 2011 Sep;90(3):551-62. doi: 10.1189/jlb.1210683. Epub 2011 Jun 17.

PMID:
21685248
17.

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.

18.

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.

19.

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.

20.

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
21.

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.

22.

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.

23.

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.

24.
25.

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.

26.

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.

27.

Hypoxia and hypoxia-inducible factor-1 alpha modulate lipopolysaccharide-induced dendritic cell activation and function.

Jantsch J, Chakravortty D, Turza N, Prechtel AT, Buchholz B, Gerlach RG, Volke M, Gläsner J, Warnecke C, Wiesener MS, Eckardt KU, Steinkasserer A, Hensel M, Willam C.

J Immunol. 2008 Apr 1;180(7):4697-705.

28.

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.

29.

A new asset for pathogen informatics--the Enteropathogen Resource Integration Center (ERIC), an NIAID Bioinformatics Resource Center for Biodefense and Emerging/Re-emerging Infectious Disease.

Greene JM, Plunkett G 3rd, Burland V, Glasner J, Cabot E, Anderson B, Neeno-Eckwall E, Qiu Y, Mau B, Rusch M, Liss P, Hampton T, Pot D, Shaker M, Shaull L, Shetty P, Shi C, Whitmore J, Wong M, Zaremba S, Blattner FR, Perna NT.

Adv Exp Med Biol. 2007;603:28-42.

PMID:
17966403
30.
31.

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.

32.

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.

33.

The novel CALM interactor CATS influences the subcellular localization of the leukemogenic fusion protein CALM/AF10.

Archangelo LF, Gläsner J, Krause A, Bohlander SK.

Oncogene. 2006 Jul 6;25(29):4099-109. Epub 2006 Feb 20.

PMID:
16491119
34.

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.

35.

Escherichia coli K-12: a cooperatively developed annotation snapshot--2005.

Riley M, Abe T, Arnaud MB, Berlyn MK, Blattner FR, Chaudhuri RR, Glasner JD, Horiuchi T, Keseler IM, Kosuge T, Mori H, Perna NT, Plunkett G 3rd, Rudd KE, Serres MH, Thomas GH, Thomson NR, Wishart D, Wanner BL.

Nucleic Acids Res. 2006 Jan 5;34(1):1-9. Print 2006.

36.

Whole-genome plasticity among Mycobacterium avium subspecies: insights from comparative genomic hybridizations.

Wu CW, Glasner J, Collins M, Naser S, Talaat AM.

J Bacteriol. 2006 Jan;188(2):711-23.

37.

ASAP: a resource for annotating, curating, comparing, and disseminating genomic data.

Glasner JD, Rusch M, Liss P, Plunkett G 3rd, Cabot EL, Darling A, Anderson BD, Infield-Harm P, Gilson MC, Perna NT.

Nucleic Acids Res. 2006 Jan 1;34(Database issue):D41-5.

38.

A small molecule alpha 4 beta 1 antagonist prevents development of murine Lyme arthritis without affecting protective immunity.

Gläsner J, Blum H, Wehner V, Stilz HU, Humphries JD, Curley GP, Mould AP, Humphries MJ, Hallmann R, Röllinghoff M, Gessner A.

J Immunol. 2005 Oct 1;175(7):4724-34.

39.

Regulation of iron transport in Streptococcus pneumoniae by RitR, an orphan response regulator.

Ulijasz AT, Andes DR, Glasner JD, Weisblum B.

J Bacteriol. 2004 Dec;186(23):8123-36. Erratum in: J Bacteriol. 2006 Aug;188(16):6045.

40.

Comparative whole-genome hybridization reveals genomic islands in Brucella species.

Rajashekara G, Glasner JD, Glover DA, Splitter GA.

J Bacteriol. 2004 Aug;186(15):5040-51.

41.

Systematic mutagenesis of the Escherichia coli genome.

Kang Y, Durfee T, Glasner JD, Qiu Y, Frisch D, Winterberg KM, Blattner FR.

J Bacteriol. 2004 Aug;186(15):4921-30. Erratum in: J Bacteriol. 2004 Dec;186(24):8548.

42.
43.

Regulatory network of Escherichia coli: consistency between literature knowledge and microarray profiles.

Gutiérrez-Ríos RM, Rosenblueth DA, Loza JA, Huerta AM, Glasner JD, Blattner FR, Collado-Vides J.

Genome Res. 2003 Nov;13(11):2435-43.

44.

Genome-scale analysis of the uses of the Escherichia coli genome: model-driven analysis of heterogeneous data sets.

Allen TE, Herrgård MJ, Liu M, Qiu Y, Glasner JD, Blattner FR, Palsson BØ.

J Bacteriol. 2003 Nov;185(21):6392-9.

45.

Predicting bacterial transcription units using sequence and expression data.

Bockhorst J, Qiu Y, Glasner J, Liu M, Blattner F, Craven M.

Bioinformatics. 2003;19 Suppl 1:i34-43.

PMID:
12855435
46.

Gene replacement without selection: regulated suppression of amber mutations in Escherichia coli.

Herring CD, Glasner JD, Blattner FR.

Gene. 2003 Jun 5;311:153-63.

PMID:
12853150
47.

A Bayesian network approach to operon prediction.

Bockhorst J, Craven M, Page D, Shavlik J, Glasner J.

Bioinformatics. 2003 Jul 1;19(10):1227-35.

PMID:
12835266
48.

ASAP, a systematic annotation package for community analysis of genomes.

Glasner JD, Liss P, Plunkett G 3rd, Darling A, Prasad T, Rusch M, Byrnes A, Gilson M, Biehl B, Blattner FR, Perna NT.

Nucleic Acids Res. 2003 Jan 1;31(1):147-51.

49.

Modelling regulatory pathways in E. coli from time series expression profiles.

Ong IM, Glasner JD, Page D.

Bioinformatics. 2002;18 Suppl 1:S241-8.

PMID:
12169553

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