Similar studies for GEO DataSets (Select 200003734) - GEO DataSets

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Items: 20

Select item 2000037341.

(Submitter supplied) Culture was split into halves and 500 uM dipyridyl was added to one half. Samples were collected after the indicated times. Groups of assays that are related as part of a time series. Keywords: time_series_design

Organism:: Salmonella enterica subsp. enterica serovar Typhimurium

Type:: Expression profiling by array

Platform:: GPL3048
6 Samples

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Series

Accession:: GSE3734

ID:: 200003734

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000037352.

Switch from LB pH7 to M9 pH5

(Submitter supplied) Salmonella must express and deploy a type III secretion system located in Salmonella pathogenicity island 2 (SPI-2) in order to survive in host phagocytic vacuoles and to cause systemic infection in mouse models of typhoid fever. A genome-wide approach to screening for Salmonella genes that are transcriptionally co-regulated in vitro with SPI-2 genes was used to identify bacterial loci that might function in a mouse model of systemic disease. more...

Organism:: Salmonella enterica subsp. enterica serovar Typhimurium

Type:: Expression profiling by array

Platform:: GPL3048
13 Samples

Download data

Series

Accession:: GSE3735

ID:: 200003735

Select item 2000031793.

Detection of Transposon Mutants That Cannot Survive in Macrophages and Mice.

(Submitter supplied) An all pairs experiment design type is where all labeled extracts are compared to every other labeled extract. We have adapted a microarray-based transposon tracking strategy for use with a Salmonella enterica serovar Typhimurium cDNA microarray in order to identify genes important for survival and replication in RAW 264.7 mouse macrophage-like cells or in the spleens of BALB/cJ mice. A 50,000-CFU transposon library of S. more...

Organism:: Salmonella enterica subsp. enterica serovar Typhimurium

Type:: Expression profiling by array

Platform:: GPL2772
12 Samples

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Series

Accession:: GSE3179

ID:: 200003179

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000044614.

Genome-wide screen for salmonella genes required for long-term systemic infection of the mouse.

(Submitter supplied) This datasets includes all arrays from the first passage through 129SvJ mice (28 days) and the second independent passage (29 days). The first passage arrays are the same as included in the experiment set "129SvJ Pass 1 28 dpi arrays" and the second passage arrays are the same as included in the experiment set "129SvJ Pass 2 28 dpi arrays". Input arrays are also included and collectively they represent two biological replicates for negative selection at ~4 weeks post infection. more...

Organism:: Salmonella enterica subsp. enterica serovar Typhimurium

Type:: Expression profiling by array

Platform:: GPL3545
29 Samples

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Series

Accession:: GSE4461

ID:: 200004461

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000471655.

Identification of Salmonella genes regulated by STM2239

(Submitter supplied) Transcriptional profile of Salmonella enterica sv Typhimurium SL1344 ΔSTM2239 mutant cultures containing either a plasmid control (pFLAG-CTC) or a plasmid carrying STM2239 (pFLAG-STM2239) in the presence of IPTG.

Organism:: Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344; Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S

Type:: Expression profiling by array

Platform:: GPL14855
3 Samples

Download data: PROBE

Series

Accession:: GSE47165

ID:: 200047165

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000599456.

Intra-macrophage transcriptome of Salmonella enterica serovar Typhimurium 4/74 using strand-specific RNA-seq

(Submitter supplied) Bacterial transcription is controlled by many transcription factors and promoters. Currently many promoters are mapped only in in vitro conditions. We use an intra-macrophage model to map the promoters and their expression in vivo. InSPI2 is an in vitro growth condition mimicking intra-macrophage condition. We also characterize the transcriptome of Salmonella during growth in an in vitro intra-macrophage growth condition.

Organism:: Salmonella enterica subsp. enterica serovar Typhimurium str. ST4/74

Type:: Expression profiling by high throughput sequencing

Platform:: GPL17562
6 Samples

Download data: GR

Series

Accession:: GSE59945

ID:: 200059945

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2000172467.

The transcriptional programme of Salmonella Typhimurium reveals a key role for tryptophan metabolism in biofilms

(Submitter supplied) Background: Biofilm formation by Salmonella species enhances the capacity of these pathogenic bacteria to survive stresses that are commonly encountered within food processing and during host infection. The persistence of Salmonella within the food chain has become a major health concern, as biofilms can serve as a reservoir to contaminate food products. While the molecular mechanisms required for the survival of bacteria on surfaces are not fully understood, transcriptional studies of other bacteria have demonstrated that biofilm growth triggers the expression of specific sets of genes, compared with planktonic cells. more...

Organism:: Salmonella enterica

Type:: Expression profiling by array

Platform:: GPL8849
21 Samples

Download data: GPR, TXT

Series

Accession:: GSE17246

ID:: 200017246

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Select item 2000637158.

Transcriptional profiles of Salmonella Typhimurium 4/74 parent and relA spoT, rpoS and dksA strains during stationary phase, and RNA polymerase distribution as determined by chromatin immunoprecipitation in parent, relA spoT and dksA strains

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Salmonella enterica subsp. enterica serovar Enteritidis; Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344; Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91; Salmonella enterica subsp. enterica serovar Typhimurium str. DT104; Salmonella enterica subsp. enterica serovar Typhimurium str. LT2

Type:: Expression profiling by array; Genome binding/occupancy profiling by array

Platforms:: GPL13609 GPL19472
101 Samples

Download data: GPR, TXT

Series

Accession:: GSE63715

ID:: 200063715

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000637149.

Transcriptomic profiles of S. Typhimurium SL1344 parent strain and ΔrpoS and ΔrelAΔspoT and ΔrelAΔspoTΔrpoS mutant strains grown to various optical densities during late-log and stationary phase in LB aerobic batch culture

(Submitter supplied) S. Typhimurium SL1344 parental strain and isogenic ΔrpoS, ΔrelAΔspoT and ΔrelAΔspoTΔrpoS strains were grown to OD600=1.0, OD600=2.3, OD600=3.0 and OD600=4.2 in Luria-Bertani medium.

Organism:: Salmonella enterica subsp. enterica serovar Enteritidis; Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344; Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91; Salmonella enterica subsp. enterica serovar Typhimurium str. DT104; Salmonella enterica subsp. enterica serovar Typhimurium str. LT2

Type:: Expression profiling by array

Platform:: GPL13609
35 Samples

Download data: GPR

Series

Accession:: GSE63714

ID:: 200063714

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20006371310.

Transcriptomic profiles of S. Typhimurium SL1344 parent strain and ΔdksA and ΔrelAΔspoTΔdksA mutant strains grown to various optical densities during late-log and stationary phase in LB aerobic batch culture

(Submitter supplied) S. Typhimurium SL1344 parental strain and isogenic ΔrpoS, ΔdksA and ΔrelAΔspoT, ΔrelAΔspoTΔrpoS and ΔrelAΔspoTΔdksA strains were grown to OD600=1.0, OD600=2.3, OD600=3.0 and OD600=4.2 in Luria-Bertani medium.

Organism:: Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344; Salmonella enterica subsp. enterica serovar Enteritidis; Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91; Salmonella enterica subsp. enterica serovar Typhimurium str. DT104; Salmonella enterica subsp. enterica serovar Typhimurium str. LT2

Type:: Expression profiling by array

Platform:: GPL13609
30 Samples

Download data: TXT

Series

Accession:: GSE63713

ID:: 200063713

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20006371111.

RNA polymerase binding sites revealed by ChIP-chip in S. Typhimurium wild-type, ΔrelAΔspoT (ppGpp0), and ΔdksA strains at early stationary phase (ESP) and late stationary phase (LSP)

(Submitter supplied) S. Typhimurium parent, ppGpp0 and dksA strains were grown to OD's of 2.3 (ESP) and 4.2 (LSP) and subjected to ChIP-chip analysis at 60 nt resolution.

Organism:: Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344

Type:: Genome binding/occupancy profiling by array

Platform:: GPL19472
36 Samples

Download data: GPR

Series

Accession:: GSE63711

ID:: 200063711

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20004991412.

ChIP-on-chip of OmpR binding in Salmonella enterica serovar Typhimurium strain SL1344 and E.scherichia coli strain CSH50 at pH 7 and pH 4.5 including analysis of OmpR binding in SL1344 in the absence and presence of novobiocin (25 μg/ml)

(Submitter supplied) OmpR is a DNA binding protein belonging to the OmpR/EnvZ two component system. This system is known to sense changes in osmolarity in Escherichia coli. Recently, OmpR in Salmonella enterica serovar Typhimurium was found to be activated by acidic pH and DNA relaxation. In this study, ChIP-on-chip was employed to ascertain the genome-wide distribution of OmpR in Salmonella Typhimurium and Escherichia coli in acidic and neutral pH. more...

Organism:: Salmonella enterica subsp. enterica serovar Typhimurium; Escherichia coli K-12; Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344

Type:: Genome binding/occupancy profiling by array

Platforms:: GPL17580 GPL10008
21 Samples

Download data: TXT

Series

Accession:: GSE49914

ID:: 200049914

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20010663013.

To compare the transcriptome of ompR null strains with wild-type strain of E. coli and S. Typhimurium during stress

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Escherichia coli str. K-12 substr. MG1655; Escherichia coli CFT073; Escherichia coli O157:H7 str. EDL933; Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S; Escherichia coli O157:H7 str. Sakai

Type:: Expression profiling by array

Platforms:: GPL24239 GPL13359
19 Samples

Download data: TXT

Series

Accession:: GSE106630

ID:: 200106630

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20010662914.

To compare the transcriptome of ompR null strains with wild-type strain of S. Typhimurium during osmotic stress

(Submitter supplied) In bacteria, one paradigm for signal transduction is the two-component regulatory system, consisting of a sensor kinase (usually a membrane protein) and a response regulator (usually a membrane protein) and a response regulator (usually a DNA binding protein). The EnvZ/OmpR two-component system in S. Typhimurium responds to osmotic stress and regulates expression of outer membrane proteins. Furthermore, bacteria were believed to regulate pH by acidifying after external acid stress, then immediately recovering. more...

Organism:: Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S

Type:: Expression profiling by array

Platform:: GPL24239
8 Samples

Download data: TXT, XLSX

Series

Accession:: GSE106629

ID:: 200106629

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Select item 20010662815.

To compare the transcriptome of ompR null strains with wild-type strain of E. coli during acid or osmotic stress

(Submitter supplied) In bacteria, one paradigm for signal transduction is the two-component regulatory system, consisting of a sensor kinase (usually a membrane protein) and a response regulator (usually a membrane protein) and a response regulator (usually a DNA binding protein). The EnvZ/OmpR two-component system in E. coli responds to osmotic stress and regulates expression of outer membrane proteins. Furthermore, bacteria were believed to regulate pH by acidifying after external acid stress, then immediately recovering. more...

Organism:: Escherichia coli O157:H7 str. EDL933; Escherichia coli str. K-12 substr. MG1655; Escherichia coli CFT073; Escherichia coli O157:H7 str. Sakai

Type:: Expression profiling by array

Platform:: GPL13359
11 Samples

Download data: TXT, XLSX

Series

Accession:: GSE106628

ID:: 200106628

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20003723416.

Effect of obacunone on Salmonella Typhimurium transcriptome

(Submitter supplied) Obacunone is a limonoids present in Citrus species. We previously reported that obacunone was inhibitory to the cell-cell signaling in Vibrio harveyi and Escherichia coli O157:H7. In the present work we evaluated the effect of obacunone on the food borne pathogen Salmonella Typhimurium LT2 using cDNA microarray. The results demonstrate that obacunone exerts an antivirulence effect on S. Typhimurium LT2 by repressing SPI1 and SPI2. more...

Organism:: Salmonella enterica subsp. enterica serovar Typhimurium str. LT2; Salmonella enterica subsp. enterica serovar Typhi str. CT18; Salmonella enterica subsp. enterica serovar Typhi str. Ty2

Type:: Expression profiling by array

Platform:: GPL15437
6 Samples

Download data: GPR

Series

Accession:: GSE37234

ID:: 200037234

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20000463117.

Effect of ppGpp on Salmonella Typhimurium gene expression

(Submitter supplied) The expression profile of an S. Typhimurium mutant strain unable to synthesise ppGpp (relAspoT deletions) was compared to the wild-type strain. The effect of ppGpp on virulence gene expression was studied under 4 different growth conditions that induce virulence gene expression. Keywords: genetic modification

Organism:: Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344; Salmonella enterica subsp. enterica serovar Typhimurium; Salmonella enterica subsp. enterica serovar Typhimurium str. LT2

Type:: Expression profiling by array

Platforms:: GPL3586 GPL3612
32 Samples

Download data: GPR

Series

Accession:: GSE4631

ID:: 200004631

Select item 20002019218.

ChIP-chip profiling of SsrB in Salmonella enterica sv. Typhimurium

(Submitter supplied) We performed chromatin immunoprecipitation on microarray (ChIP-chip) transcriptional profiling of the SsrB regulator of Salmonella enterica Typhimurium to better characterize its regulon and to identify the DNA-recognition element coordinating its specific interaction at cis-regulatory sites. SsrB, the response regulator of the two component regulatory system SsrA-SsrB encoded within the Salmonella Pathogenicity Island (SPI-2), directs transcriptional activation of the closely associated type three secretion system (T3SS) also encoded at this locus. more...

Organism:: Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344

Type:: Genome binding/occupancy profiling by genome tiling array

Platform:: GPL10008
4 Samples

Download data: TXT

Series

Accession:: GSE20192

ID:: 200020192

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20019306319.

Transcriptomic analysis of attenuated Salmonella Typhimurium infected chicken primary macrophages

(Submitter supplied) Salmonella enterica is one of the most important foodborne pathogens that infect a variety of animals and birds. In humans, S. Typhimurium causes gastroenteritis, leading to vomiting, diarrhea, fever, and abdominal cramps. We mainly get infected with Salmonella by ingesting comminated poultry products. Therefore, developing an oral live attenuated vaccine for the poultry industry is our best bet against Salmonella infection. more...

Organism:: Gallus gallus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL19787
12 Samples

Download data: TXT

Series

Accession:: GSE193063

ID:: 200193063

PubMed Full text in PMC Similar studies

Select item 20000240220.

Aquaporin-1 Knockout vs Wild type Mice (Re-spot found)

(Submitter supplied) This dataset was derived (re-spot found) from the original images used in GSE1298. This experiment compared aRNA derived from the kidney inner medula of three mice lacking a functional aquaporin-1 gene to three wild type mice. Each sample was hybridized 4 times, against 4 of the other 5 samples, using an interwoven loop experimental design. Keywords: repeat sample

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL1104
12 Samples

Download data

Series

Accession:: GSE2402

ID:: 200002402

PubMed Full text in PMC Similar studies Analyze with GEO2R

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