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Links from GEO DataSets

Items: 20

1.

Genome-wide Definition of the SigF Regulon in Mycobacterium tuberculosis (Expression)

(Submitter supplied) The genome wide transcriptome analysis to identify the M.tuberculosis sigma factor Rv3286c (SigF) dependent transcripts as well as Pristimaycin induced transcripts
Organism:
Mycobacterium tuberculosis; Mycobacterium tuberculosis H37Rv
Type:
Expression profiling by genome tiling array
Platform:
GPL15144
14 Samples
Download data: TXT
Series
Accession:
GSE34922
ID:
200034922
2.

Genome-wide Definition of the SigF Regulon in Mycobacterium tuberculosis

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mycobacterium tuberculosis; Mycobacterium tuberculosis H37Rv
Type:
Genome binding/occupancy profiling by genome tiling array; Expression profiling by genome tiling array
Platforms:
GPL15091 GPL15144
18 Samples
Download data: TXT
Series
Accession:
GSE35080
ID:
200035080
3.

Genome-wide Definition of the SigF Regulon in Mycobacterium tuberculosis (ChIP-chip)

(Submitter supplied) The genome wide ChIP-on-chip analysis to identify the DNA binding sites for the M.tuberculosis sigma factor Rv3286c (SigF)
Organism:
Mycobacterium tuberculosis H37Rv; Mycobacterium tuberculosis
Type:
Genome binding/occupancy profiling by genome tiling array
Platform:
GPL15091
4 Samples
Download data: TXT
Series
Accession:
GSE34919
ID:
200034919
4.

Transciptional profile of a M. smegmatis mc2155 ΔsigF strain under standard growth conditions

(Submitter supplied) Comparing transciptional profile of a M. smegmatis mc2155 ΔsigF strain and wild type (control) in in vitro culture at two time points (exponential phase and stationary phase) for identification of SigF-dependent genes.
Organism:
Mycolicibacterium smegmatis
Type:
Expression profiling by array
Platform:
GPL5862
8 Samples
Download data: TXT
Series
Accession:
GSE19145
ID:
200019145
5.

Characterization of Mycobacterium smegmatis SigF regulon

(Submitter supplied) Mycobacterium smegmatis SigF is a group III sigma factor. Its ortholog in M. tuberculosis is reported to have role in regulation and function of cell wall components. In present study we have created an M. smegmatis ΔsigF mutant by allele exchange method. M. smegmatis sigF mutant shows non pigmented phenotype and is more sensitive to hydrogen peroxide generated oxidative stress. DNA microarray analysis of M. more...
Organism:
Mycolicibacterium smegmatis MC2 155
Type:
Expression profiling by array
Platform:
GPL9823
8 Samples
Download data: TXT
Series
Accession:
GSE19774
ID:
200019774
6.

The Mycobacterium tuberculosis ECF sigma Factor sE: role in global gene expression and survival in macrophages

(Submitter supplied) In previously published work, we identified three Mycobacterium tuberculosis sigma (s) factor genes responding to heat shock (sigB, sigE and sigH ). Two of them (sigB and sigE ) also responded to SDS exposure. As these responses to stress suggested that the s factors encoded by these genes could be involved in pathogenicity, we are studying their role in physiology and virulence. In this work, we characterize a sigE mutant of M. more...
Organism:
Mycobacterium tuberculosis
Type:
Expression profiling by array
Platform:
GPL2787
15 Samples
Download data: TXT
Series
Accession:
GSE8664
ID:
200008664
7.

The PhoP-dependent ncRNA Mcr7 modulates the TAT secretion system in Mycobacterium tuberculosis

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mycobacterium tuberculosis H37Rv
Type:
Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL17280 GPL17967
5 Samples
Download data: TXT
Series
Accession:
GSE54241
ID:
200054241
8.

The PhoP-dependent ncRNA Mcr7 modulates the TAT secretion system in Mycobacterium tuberculosis [RNA-Seq]

(Submitter supplied) The PhoPR two-component system is essential for virulence in Mycobacterium tuberculosis where it controls expression of approximately 2% of the genes, including those for the ESX-1 secretion apparatus, a major virulence determinant. Mutations in phoP lead to compromised production of pathogen-specific cell wall components and attenuation both ex vivo and in vivo. Using antibodies against the native protein in ChIP-seq experiments (chromatin immunoprecipitation followed by high-throughput sequencing) we demonstrated that PhoP binds to at least 35 loci on the M. more...
Organism:
Mycobacterium tuberculosis H37Rv
Type:
Expression profiling by high throughput sequencing
Platform:
GPL17280
2 Samples
Download data: TSV, TXT
Series
Accession:
GSE54240
ID:
200054240
9.

The PhoP-dependent ncRNA Mcr7 modulates the TAT secretion system in Mycobacterium tuberculosis [ChIP-Seq]

(Submitter supplied) The PhoPR two-component system is essential for virulence in Mycobacterium tuberculosis where it controls expression of approximately 2% of the genes, including those for the ESX-1 secretion apparatus, a major virulence determinant. Mutations in phoP lead to compromised production of pathogen-specific cell wall components and attenuation both ex vivo and in vivo. Using antibodies against the native protein in ChIP-seq experiments (chromatin immunoprecipitation followed by high-throughput sequencing) we demonstrated that PhoP binds to at least 35 loci on the M. more...
Organism:
Mycobacterium tuberculosis H37Rv
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL17967
3 Samples
Download data: TXT
Series
Accession:
GSE54239
ID:
200054239
10.

Mycobacterium tuberculosis and macrophage response

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mycobacterium tuberculosis
Type:
Expression profiling by array
Platform:
GPL4057
33 Samples
Download data: GPR
Series
Accession:
GSE7963
ID:
200007963
11.

Sigma factor E of Mycobacterium tuberculosis controls the expression of bacterial components that modulate macrophages

(Submitter supplied) Sigma factor E (SigE) controls the expression of genes that are essential for Mtb virulence. In this work, we have identified the SigE regulon during infection of macrophages Our results indicate that SigE regulates the expression of genes involved in the maintenance of Mtb cell envelope integrity and function (i.e., detoxification and secretion). Keywords: strains comparison
Organism:
Mycobacterium tuberculosis
Type:
Expression profiling by array
Platform:
GPL4057
23 Samples
Download data: GPR
Series
Accession:
GSE7962
ID:
200007962
12.

The global transcriptional profile of Mycobacterium tuberculosis during human macrophages infection

(Submitter supplied) During lung infection Mycobacterium tuberculosis (Mtb) resides in macrophages and subverts the bactericidal mechanisms of these professional phagocytes. In this work we have analyzed by DNA microarray technique the global transcription profile of Mtb infecting primary human macrophages in order to identify putative bacterial pathogenic factors that can be relevant for the intracellular survival of Mtb. more...
Organism:
Mycobacterium tuberculosis
Type:
Expression profiling by array
Platform:
GPL4057
11 Samples
Download data: GPR
Series
Accession:
GSE6209
ID:
200006209
13.

Role of the extracytoplasmic-function sigma Factor sigmaH in Mycobacterium tuberculosis global gene expression

(Submitter supplied) Like other bacterial species, Mycobacterium tuberculosis has multiple sigma (s) factors encoded in its genome. In previously published work, we and others have shown that mutations in some of these transcriptional activators render M. tuberculosis sensitive to various environmental stresses and, in some cases, cause attenuated virulence phenotypes. In this paper, we characterize a M. tuberculosis mutant lacking the ECF s factor sigma-H. more...
Organism:
Mycobacterium tuberculosis
Type:
Expression profiling by array
Platform:
GPL2787
15 Samples
Download data: TXT
Series
Accession:
GSE8689
ID:
200008689
14.

Effect of sigH in the growth phase transition of Clostridium difficile

(Submitter supplied) This study is based on two microarray datasets, in one hand a phase transition comparison using the expression profiles of 630E strain after 4h and 10h of growth. In other hand a comparison at 10h of growth between a mutant of the sigH gene and the WT strains. This experimental procedure was designed to investigate the effect of sigH in the growth phase transition of Clostridium difficile. This SuperSeries is composed of the SubSeries listed below.
Organism:
Clostridioides difficile
Type:
Expression profiling by array
Platform:
GPL10556
8 Samples
Download data: GPR
Series
Accession:
GSE25521
ID:
200025521
15.

Comparison of the expression profiles of 630E strain and a sigH mutant after 10h of growth

(Submitter supplied) Transcriptionnal profiling of C. difficile 630E strain vs a sigH mutant after 10h of growth in TY
Organism:
Clostridioides difficile
Type:
Expression profiling by array
Platform:
GPL10556
4 Samples
Download data: GPR
Series
Accession:
GSE25475
ID:
200025475
16.

Comparison of the expression profiles of 630E strain after 4h and 10h of growth

(Submitter supplied) Transcriptional profiling of C. difficile 630E strain after 4h vs 10h of growth
Organism:
Clostridioides difficile
Type:
Expression profiling by array
Platform:
GPL10556
4 Samples
Download data: GPR
Series
Accession:
GSE25474
ID:
200025474
17.

Functional Genomics Reveals Extended Roles of the Mycobacterium tuberculosis Stress Response Factor sigmaH

(Submitter supplied) DNA Microarray based comparison of M. tuberculosis and its isogenic delta-sigmaH mutant for an extended period of time, using a diamide-stress and removal strategy (post-diamide stress or PDS) Raw data has been requested of, but not provided by, the submitter.
Organism:
Mycobacterium tuberculosis
Type:
Expression profiling by array
Platform:
GPL8382
12 Samples
Download data
Series
Accession:
GSE15608
ID:
200015608
18.

Sigma(M) regulated genes under antibiotic stress (vancomycin)

(Submitter supplied) Abstract of associated manuscript: The Bacillus subtilis extracytoplasmic function (ECF) sigma(M) factor is activated by cell envelope stress elicited by antibiotics, and by acid, heat, ethanol and superoxide stresses. Here, we have used several complementary approaches to identify genes controlled by sigma(M). In many cases, expression is only partially dependent on sigma(M) because of both overlapping promoter recognition with other ECF sigma factors and the presence of additional promoter elements. more...
Organism:
Bacillus subtilis
Type:
Expression profiling by array
Platform:
GPL7420
14 Samples
Download data: GPR
Series
Accession:
GSE13820
ID:
200013820
19.

Genome-wide analyses of C. glutamicum SigC

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Corynebacterium glutamicum; Corynebacterium glutamicum R
Type:
Expression profiling by array; Genome binding/occupancy profiling by array
Platforms:
GPL17881 GPL20865 GPL20864
14 Samples
Download data: TXT
Series
Accession:
GSE72453
ID:
200072453
20.

Chip-chip analysis of C. glutamicum SigC

(Submitter supplied) Bacteria modify expression of different types of terminal oxidase in response to oxygen availability. Corynebacterium glutamicum, a facultative anaerobic bacterium in Actinobacteria, possesses aa3-type cytochrome c oxidase and cytochrome bd-type quinol oxidase, the latter of which is induced upon oxygen limitation. We report here that an extracytoplasmic function sigma factor, SigC, is unprecedentedly responsible for the regulation. more...
Organism:
Corynebacterium glutamicum R
Type:
Genome binding/occupancy profiling by array
Platform:
GPL20865
4 Samples
Download data: TXT
Series
Accession:
GSE72452
ID:
200072452
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