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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Comparative genomic hybridization of mouse adapted strains of Helicobacter pylori

ABSTRACT: Microarray based comparative genomic hybridization of mouse adapted strains: 10700 pre-mouse SS1, SS1(A.L.)Sydney strain obtained directly from Adrian Lee, NSH79 Salama lab strain labeled as SS1-now know distinct, G27 obtained from Antonello Covacci. Genomic DNA from est strain (Cy5), genomic DNA from reference strains used for array fabrication (equimolar mix of 26695 and J99 genomic DNA)

ORGANISM(S): Helicobacter pylori

SUBMITTER: Janos Demeter

PROVIDER: E-SMDB-3902 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Identification of Helicobacter pylori genes that contribute to stomach colonization.

Baldwin David N DN Shepherd Benjamin B Kraemer Petra P Hall Michael K MK Sycuro Laura K LK Pinto-Santini Delia M DM Salama Nina R NR

Infection and immunity 20061113 2

Chronic infection of the human stomach by Helicobacter pylori leads to a variety of pathological sequelae, including peptic ulcer and gastric cancer, resulting in significant human morbidity and mortality. Several genes have been implicated in disease related to H. pylori infection, including the vacuolating cytotoxin and the cag pathogenicity island. Other factors important for the establishment and maintenance of infection include urease enzyme production, motility, iron uptake, and stress res ...[more]

PMID: 17101654

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Mouse adapted strain CGH

Project description:Microarray based comparative genomic hybridization of mouse adapted strains: 10700 pre-mouse SS1, SS1(A.L.)Sydney strain obtained directly from Adrian Lee, NSH79 Salama lab strain labeled as SS1-now know distinct, G27 obtained from Antonello Covacci. Genomic DNA from est strain (Cy5), genomic DNA from reference strains used for array fabrication (equimolar mix of 26695 and J99 genomic DNA) An all pairs experiment design type is where all labeled extracts are compared to every other labeled extract. Keywords: all_pairs

2006-12-15 | GSE6530 | GEO

Chronic Helicobacter pylori Infection with Sydney Strain 1 and Mouse-Adapted Sydney Strain 2000

Project description:This experiment set contains the raw data for 8 arrays that were used in the genomic typing of the pre- and post-mouse H. pylori strains SS1 and SS2000. 10700 is the pre-mouse clinical isolate of SS1 and PMSS2000 is the pre-mouse clinical isolate of SS2000. gDNA from these strains were labeled and hybridized to H. pylori microarrays as described in Salama et al. {Salama et al. 2000 PNAS 97:14668-73}. In each case the test gDNA sample was labeled with Cy5 (red) and this was hybridized with Cy3 (green) labeled reference DNA of equal amount. The reference DNA consisted of equal amounts of gDNA from the two H. pylori strains used to make the H. pylori microarray, 26695 and J99. Set of arrays organized by shared biological context, such as organism, tumors types, processes, etc. Keywords: Logical Set

2006-01-07 | GSE3988 | GEO

Chronic Helicobacter pylori Infection with Sydney Strain 1 and Mouse-Adapted Sydney Strain 2000

2006-01-06 | E-GEOD-3988 | biostudies-arrayexpress

Carolina_Gastritis_DU_GC_series

Project description:Array CGH of Mexican patient strains from Javier Torres laboratory analyzed by Carolina Romo. Patients have a range of pathologies form gastritis to ulcer to cancer. Multiple strains were isolated from each patient and all those giving distinct RAPD patterns were profiled against a reference sample of 26695/J99 genomic DNA. For each array 0.25-1 micrograms of genomic DNA of a test strains was labeled with Cy5 and 0.5 micrograms of an equimolar mix of 26695 and J99 genomic DNA was labeled with Cy3. A clinical history design type is where the organisms clinical history of diagnosis, treatments, e.g. vaccinations, surgery etc. Individual: Patient from whom the strain was isolated (#) Disease State: Disease of patient from whom the strain was isolated Replicate: strain isolate (within patient) (#) Keywords: clinical_history_design

2009-09-25 | GSE12932 | GEO

Comparative genomic hybridization of pre- and post-mouse H. pylori strains SS1 and SS2000

Project description:This experiment set contains the raw data for 8 arrays that were used in the genomic typing of the pre- and post-mouse H. pylori strains SS1 and SS2000. 10700 is the pre-mouse clinical isolate of SS1 and PMSS2000 is the pre-mouse clinical isolate of SS2000. gDNA from these strains were labeled and hybridized to H. pylori microarrays as described in Salama et al. {Salama et al. 2000 PNAS 97:14668-73}. In each case the test gDNA sample was labeled with Cy5 (red) and this was hybridized with Cy3 (green) labeled reference DNA of equal amount. The reference DNA consisted of equal amounts of gDNA from the two H. pylori strains used to make the H. pylori microarray, 26695 and J99. This data was used for the manuscript: L. J. Thompson, S. J. Danon, J.E. Wilson, J. L. O'Rourke, N. R. Salama, S. Falkow, H. Mitchell, and A. Lee. (2004) Chronic Helicobacter pylori infection in C57BL/6 and BALB/c mice using SS1 and a newly identified mouse-adapted strain (SS2000). Infect. Immun. (in press).

2005-11-03 | E-SMDB-1734 | biostudies-arrayexpress

Carolina_Gastritis_DU_GC_series

2010-06-25 | E-GEOD-12932 | biostudies-arrayexpress

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Project description:The monkey infecting Helicobacter pylori strain USU101 used in a long term infection of macaques with and without the dietary carcinogen ENNG was analyzed for gene content compared to the sequenced strains 26695 and J99

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Emory_Pediatric_Strains_1

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2009-11-04 | E-GEOD-13317 | biostudies-arrayexpress

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