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Items: 20

1.

Dual RNA-seq – sRNA profiling in various cell types

(Submitter supplied) Bacteria possess many small noncoding RNAs whose regulatory roles in pathogenesis are little understood due to a paucity of macroscopic phenotypes in standard virulence assays. Here, we use a novel Dual RNA-seq approach for a single-step simultaneous RNA profiling in both pathogen and host to reveal molecular phenotypes of sRNAs during infection with Salmonella Typhimurium. We identify a new PhoP/Q-activated small RNA which upon bacterial internalization acts to temporally control the expression of both, invasion-associated effectors and virulence genes required for intracellular survival. more...
Organism:
Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344; Homo sapiens; Sus scrofa; Mus musculus
Type:
Expression profiling by high throughput sequencing
6 related Platforms
89 Samples
Download data: CSV
Series
Accession:
GSE67947
ID:
200067947

PubMed Similar studies SRA Run Selector

2.

Dual RNA-seq – Dual RNA-seq of further sRNA mutants

(Submitter supplied) Bacteria possess many small noncoding RNAs whose regulatory roles in pathogenesis are little understood due to a paucity of macroscopic phenotypes in standard virulence assays. Here, we use a novel Dual RNA-seq approach for a single-step simultaneous RNA profiling in both pathogen and host to reveal molecular phenotypes of sRNAs during infection with Salmonella Typhimurium. We identify a new PhoP/Q-activated small RNA which upon bacterial internalization acts to temporally control the expression of both, invasion-associated effectors and virulence genes required for intracellular survival. more...
Organism:
Homo sapiens; Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL20050 GPL20051
42 Samples
Download data: CSV
Series
Accession:
GSE67952
ID:
200067952

PubMed Similar studies SRA Run Selector

3.

Dual RNA-seq – Host response to pinT*

(Submitter supplied) Bacteria possess many small noncoding RNAs whose regulatory roles in pathogenesis are little understood due to a paucity of macroscopic phenotypes in standard virulence assays. Here, we use a novel Dual RNA-seq approach for a single-step simultaneous RNA profiling in both pathogen and host to reveal molecular phenotypes of sRNAs during infection with Salmonella Typhimurium. We identify a new PhoP/Q-activated small RNA which upon bacterial internalization acts to temporally control the expression of both, invasion-associated effectors and virulence genes required for intracellular survival. more...
Organism:
Homo sapiens; Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20050
8 Samples
Download data: CSV
Series
Accession:
GSE67951
ID:
200067951

PubMed Similar studies SRA Run Selector

4.

Dual RNA-seq – Pulse-expression of pinT

(Submitter supplied) Bacteria possess many small noncoding RNAs whose regulatory roles in pathogenesis are little understood due to a paucity of macroscopic phenotypes in standard virulence assays. Here, we use a novel Dual RNA-seq approach for a single-step simultaneous RNA profiling in both pathogen and host to reveal molecular phenotypes of sRNAs during infection with Salmonella Typhimurium. We identify a new PhoP/Q-activated small RNA which upon bacterial internalization acts to temporally control the expression of both, invasion-associated effectors and virulence genes required for intracellular survival. more...
Organism:
Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344; Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL20050 GPL20062
12 Samples
Download data: CSV
Series
Accession:
GSE67950
ID:
200067950

PubMed Similar studies SRA Run Selector

5.

Dual RNA-seq – Comparative RNA-seq (in vitro medium shift experiment)

(Submitter supplied) Bacteria possess many small noncoding RNAs whose regulatory roles in pathogenesis are little understood due to a paucity of macroscopic phenotypes in standard virulence assays. Here, we use a novel Dual RNA-seq approach for a single-step simultaneous RNA profiling in both pathogen and host to reveal molecular phenotypes of sRNAs during infection with Salmonella Typhimurium. We identify a new PhoP/Q-activated small RNA which upon bacterial internalization acts to temporally control the expression of both, invasion-associated effectors and virulence genes required for intracellular survival. more...
Organism:
Salmonella enterica subsp. enterica serovar Typhimurium
Type:
Expression profiling by high throughput sequencing
Platform:
GPL21220
18 Samples
Download data: CSV
Series
Accession:
GSE67949
ID:
200067949

PubMed Similar studies SRA Run Selector

6.

Dual RNA-seq – Comparative Dual RNA-seq in pig macrophages

(Submitter supplied) Bacteria possess many small noncoding RNAs whose regulatory roles in pathogenesis are little understood due to a paucity of macroscopic phenotypes in standard virulence assays. Here, we use a novel Dual RNA-seq approach for a single-step simultaneous RNA profiling in both pathogen and host to reveal molecular phenotypes of sRNAs during infection with Salmonella Typhimurium. We identify a new PhoP/Q-activated small RNA which upon bacterial internalization acts to temporally control the expression of both, invasion-associated effectors and virulence genes required for intracellular survival. more...
Organism:
Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344; Sus scrofa
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20065
33 Samples
Download data: CSV
Series
Accession:
GSE67948
ID:
200067948

PubMed Similar studies SRA Run Selector

7.

Dual RNA-seq – rRNA depletion establishment

(Submitter supplied) Bacteria possess many small noncoding RNAs whose regulatory roles in pathogenesis are little understood due to a paucity of macroscopic phenotypes in standard virulence assays. Here, we use a novel Dual RNA-seq approach for a single-step simultaneous RNA profiling in both pathogen and host to reveal molecular phenotypes of sRNAs during infection with Salmonella Typhimurium. We identify a new PhoP/Q-activated small RNA which upon bacterial internalization acts to temporally control the expression of both, invasion-associated effectors and virulence genes required for intracellular survival. more...
Organism:
Homo sapiens; Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20051
2 Samples
Download data: CSV
Series
Accession:
GSE67759
ID:
200067759

PubMed Similar studies SRA Run Selector

8.

Dual RNA-seq – High-resolution comparative Dual RNA-seq time-course

(Submitter supplied) Bacteria possess many small noncoding RNAs whose regulatory roles in pathogenesis are little understood due to a paucity of macroscopic phenotypes in standard virulence assays. Here, we use a novel Dual RNA-seq approach for a single-step simultaneous RNA profiling in both pathogen and host to reveal molecular phenotypes of sRNAs during infection with Salmonella Typhimurium. We identify a new PhoP/Q-activated small RNA which upon bacterial internalization acts to temporally control the expression of both, invasion-associated effectors and virulence genes required for intracellular survival. more...
Organism:
Homo sapiens; Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL18573 GPL20051
51 Samples
Download data: CSV
Series
Accession:
GSE67758
ID:
200067758

PubMed Similar studies SRA Run Selector

9.

Dual RNA-seq – Pilot Dual RNA-seq

(Submitter supplied) Bacteria possess many small noncoding RNAs whose regulatory roles in pathogenesis are little understood due to a paucity of macroscopic phenotypes in standard virulence assays. Here, we use a novel Dual RNA-seq approach for a single-step simultaneous RNA profiling in both pathogen and host to reveal molecular phenotypes of sRNAs during infection with Salmonella Typhimurium. We identify a new PhoP/Q-activated small RNA which upon bacterial internalization acts to temporally control the expression of both, invasion-associated effectors and virulence genes required for intracellular survival. more...
Organism:
Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344; Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20050
24 Samples
Download data: CSV
Series
Accession:
GSE67757
ID:
200067757

PubMed Similar studies SRA Run Selector

10.

Dual RNA-seq of diverse human, mouse and pig cell-types infected with various Salmonella strains

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens; Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344; Sus scrofa; Mus musculus; Salmonella enterica subsp. enterica serovar Typhimurium
Type:
Expression profiling by high throughput sequencing
8 related Platforms
279 Samples
Download data
Series
Accession:
GSE60144
ID:
200060144

PubMed Similar studies

11.

Role of ProQ in Salmonella virulence

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344; Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL20056 GPL20051
42 Samples
Download data
Series
Accession:
GSE117256
ID:
200117256

PubMed Full text in PMC Similar studies

12.

Role of ProQ in Salmonella virulence - in vitro

(Submitter supplied) FinO-domain proteins such as ProQ of the model pathogen Salmonella enterica have emerged as a new class of major RNA-binding proteins in bacteria. ProQ has been shown to target hundreds of transcripts including mRNAs from many virulence regions but its role, if any, in bacterial pathogenesis has not been studied. Here, using a Dual RNA-seq approach to profile ProQ-dependent gene expression changes as Salmonella infects human cells, we reveal dysregulation of bacterial motility, chemotaxis and virulence genes which is accompanied by altered mitogen-activated protein kinase signaling in the host. more...
Organism:
Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20056
24 Samples
Download data: CSV
Series
Accession:
GSE117255
ID:
200117255

PubMed Full text in PMC Similar studies SRA Run Selector

13.

Role of ProQ in Salmonella virulence - pulse expression

(Submitter supplied) FinO-domain proteins such as ProQ of the model pathogen Salmonella enterica have emerged as a new class of major RNA-binding proteins in bacteria. ProQ has been shown to target hundreds of transcripts including mRNAs from many virulence regions but its role, if any, in bacterial pathogenesis has not been studied. Here, using a Dual RNA-seq approach to profile ProQ-dependent gene expression changes as Salmonella infects human cells, we reveal dysregulation of bacterial motility, chemotaxis and virulence genes which is accompanied by altered mitogen-activated protein kinase signaling in the host. more...
Organism:
Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20056
6 Samples
Download data: CSV
Series
Accession:
GSE117252
ID:
200117252

PubMed Full text in PMC Similar studies SRA Run Selector

14.

Role of ProQ in Salmonella virulence - dual RNA-Seq

(Submitter supplied) FinO-domain proteins such as ProQ of the model pathogen Salmonella enterica have emerged as a new class of major RNA-binding proteins in bacteria. ProQ has been shown to target hundreds of transcripts including mRNAs from many virulence regions but its role, if any, in bacterial pathogenesis has not been studied. Here, using a Dual RNA-seq approach to profile ProQ-dependent gene expression changes as Salmonella infects human cells, we reveal dysregulation of bacterial motility, chemotaxis and virulence genes which is accompanied by altered mitogen-activated protein kinase signaling in the host. more...
Organism:
Homo sapiens; Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344
Type:
Expression profiling by high throughput sequencing
Platform:
GPL20051
12 Samples
Download data: CSV
Series
Accession:
GSE117236
ID:
200117236

PubMed Full text in PMC Similar studies SRA Run Selector

15.

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

16.

MAPS integrates regulation of actin-targeting effector SteC into the virulence control network of Salmonella small RNA PinT

(Submitter supplied) In this study we take an integrative approach to capturing targets of the Hfq- associated sRNA PinT, a known post-transcriptional timer of the two major virulence programs of Salmonella enterica, using MS2 affinity purification and RNA- sequencing (MAPS).
Organism:
Mus musculus; Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL20056 GPL20064
15 Samples
Download data: WIG
Series
Accession:
GSE157499
ID:
200157499

PubMed Similar studies SRA Run Selector

17.

Partitioning of a RNA interactome by gradient profiling (Grad-seq)

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Salmonella enterica subsp. enterica serovar Typhimurium; Escherichia coli
Type:
Expression profiling by high throughput sequencing; Other
Platforms:
GPL14548 GPL17070
24 Samples
Download data: WIG
Series
Accession:
GSE62988
ID:
200062988

PubMed Full text in PMC Similar studies

18.

RIP-seq of RNA associated in vivo with the ProQ, Hfq or CsrA proteins, performed in Salmonella Typhimurium SL1344 or Escherichia coli W3110

(Submitter supplied) While many general RNA-binding proteins have been described in eukaryotes, the small RNA chaperone Hfq and the translational regulator CsrA remain the only known global RNA-associated cofactors involved in the bacterial post-transcriptional gene expression control. Here, using an RNA-seq-based analysis of the biochemically partitioned ensemble of cellular RNAs, we uncovered a large group of transcripts that interact with the RNA-binding protein ProQ in Salmonella enterica. more...
Organism:
Escherichia coli
Type:
Other
Platform:
GPL14548
4 Samples
Download data: WIG
Series
Accession:
GSE62987
ID:
200062987

PubMed Full text in PMC Similar studies SRA Run Selector

19.

Fraction-wise RNA-seq of the Salmonella Typhimurium SL1344 cell lysate resolved on a 10-40% glycerol gradient

(Submitter supplied) While many general RNA-binding proteins have been described in eukaryotes, the small RNA chaperone Hfq and the translational regulator CsrA remain the only known global RNA-associated cofactors involved in the bacterial post-transcriptional gene expression control. Here, using an RNA-seq-based analysis of the biochemically partitioned ensemble of cellular RNAs, we uncovered a large group of transcripts that interact with the RNA-binding protein ProQ in Salmonella enterica. more...
Organism:
Salmonella enterica subsp. enterica serovar Typhimurium
Type:
Expression profiling by high throughput sequencing
Platform:
GPL17070
20 Samples
Download data: WIG
Series
Accession:
GSE62986
ID:
200062986

PubMed Full text in PMC Similar studies SRA Run Selector

20.

A Salmonella-encoded microRNA-like RNA facilitates bacterial invasion and intracellular replication via suppressing host cell inducible nitric oxide synthase

(Submitter supplied) As the leading cause of food-borne illness in the world, Salmonella have evolved a sophisticated machinery to alter host cell function to promote virulence and survival.In this study, we compare production of non-coding RNAs between Salmonella-infected cells and mock infection cells. Using Solexa deep sequencing, we detected a panel of 19-24nt Salmonella-derived non-coding RNA fragments with considerable large copy numbers in human colonic epithelial HT-29 cells following Salmonella infection.The fragment with the highest copy number, Sal-1, was further validated by both quantitative reverse transcription polymerase chain reaction (qRT-PCR) and northern blot. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL10999
2 Samples
Download data: TXT
Series
Accession:
GSE53586
ID:
200053586

PubMed Full text in PMC Similar studies SRA Run Selector

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