Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

13 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptome analysis of wt and PerR mutant Group A streptococcus (GAS), strain 003Sm in THB medium, with and without hydrogen peroxide

ABSTRACT: Transcriptome analysis of of wt and PerR mutant Group A streptococcus strain 003Sm grown in the presence or absence of hydrogen peroxide, at early and late log

ORGANISM(S): Streptococcus pyogenes

SUBMITTER: Renata Grifantini/Annalisa Colaprico

PROVIDER: E-MTAB-646 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Publications

Peroxide stimulon and role of PerR in group A Streptococcus.

Grifantini Renata R Toukoki Chadia C Colaprico Annalisa A Gryllos Ioannis I

Journal of bacteriology 20110923 23

We have characterized group A Streptococcus (GAS) genome-wide responses to hydrogen peroxide and assessed the role of the peroxide response regulator (PerR) in GAS under oxidative stress. Comparison of transcriptome changes elicited by peroxide in wild-type bacteria with those in a perR deletion mutant showed that 76 out of 237 peroxide-regulated genes are PerR dependent. Unlike the PerR-mediated upregulation of peroxidases and other peroxide stress defense mechanisms previously reported in gram ...[more]

PMID: 21949080

Similar Datasets

Transcriptome analysis of wt and PerR mutant Group A streptococcus (GAS), strain 003Sm in THB medium, with and without hydrogen peroxide

Project description:Transcriptome analysis of of wt and PerR mutant Group A streptococcus strain 003Sm grown in the presence or absence of hydrogen peroxide, at early and late log

2011-12-31 | E-MTAB-628 | biostudies-arrayexpress

Transcription profiling of Streptococcus pyongenes wild type GAS M1 strain compared to perR deletion mutant in mid and late log growth phases

Project description:Analysis of PerR regulon. Global transcription profile of wild type GAS M1 (SF370) as compared to perR deletion mutant in mid- and late- log growth phases

2009-01-01 | E-MEXP-1625 | biostudies-arrayexpress

Transcription profiling of Streptococcus agalactiae wild type and delta covRS strains at different pH conditions

Project description:Analysis of CsrRS (CovRS) two-component system. Global transcription profile of wild type GBS 2603V/R and covRS deletion mutant strains at neutral and acidic pH conditions

2010-05-13 | E-TABM-708 | biostudies-arrayexpress

Methylation detection Oligonucleotide Microarray Analysis: high resolution method for CpG island methylation detection

Project description:This SuperSeries is composed of the following subset Series: GSE15746: Methylation detection Oligonucleotide Microarray Analysis: high resolution method for CpG island methylation detection 1 GSE15747: Methylation detection Oligonucleotide Microarray Analysis: high resolution method for CpG island methylation detection 2 Refer to individual Series

2010-05-19 | E-GEOD-15801 | biostudies-arrayexpress

Methylation detection Oligonucleotide Microarray Analysis: high resolution method for CpG island methylation detection 2

Project description:Methylation of CpG islands associated with genes can affect the expression of the proximal gene, and methylation of non associated CpG islands correlates to genomic instability. This epigenetic modification has been shown to be important in many pathologies, from development and disease to cancer. We report the development of a novel high-resolution microarray that detects the methylation status of over 25,000 CpG islands in the human genome. Experiments were performed to demonstrate low system noise in the methodology and that the array probes have a high signal to noise ratio. Methylation measurements between different cell lines were validated demonstrating the accuracy of measurement. We then identified alterations in CpG islands, both those associated with gene promoters, as well as non-promoter associated islands in a set of breast and ovarian tumors. We demonstrate that this methodology accurately identifies methylation profiles in cancer and in principle it can differentiate any CpG methylation alterations and can be adapted to analyze other species. We have developed a method to profile genome wide methylation. 7 ovarian normal samples and 11 tumor samples from other individuals were analyzed for CpG methylation. After inter array normalization, the tumor samples were taken together and the methylation compared to that of the normal samples to identify regions of the CpG islands that are significantly altered between the two datasets. Some of these regions were validated for their methylation as a proof of principle for the method.

2010-05-19 | E-GEOD-15747 | biostudies-arrayexpress

Methylation detection Oligonucleotide Microarray Analysis: high resolution method for CpG island methylation detection 1

Project description:Methylation of CpG islands associated with genes can affect the expression of the proximal gene, and methylation of non associated CpG islands correlates to genomic instability. This epigenetic modification has been shown to be important in many pathologies, from development and disease to cancer. We report the development of a novel high-resolution microarray that detects the methylation status of over 25,000 CpG islands in the human genome. Experiments were performed to demonstrate low system noise in the methodology and that the array probes have a high signal to noise ratio. Methylation measurements between different cell lines were validated demonstrating the accuracy of measurement. We then identified alterations in CpG islands, both those associated with gene promoters, as well as non-promoter associated islands in a set of breast and ovarian tumors. We demonstrate that this methodology accurately identifies methylation profiles in cancer and in principle it can differentiate any CpG methylation alterations and can be adapted to analyze other species. We have developed a method to profile genome wide methylation. 12 breast normal samples and matching tumors from these individuals and an additional 28 tumor samples from other individuals were analyzed for CpG methylation. After inter array normalization, the tumor samples were taken together and the methylation compared to that of the normal samples to identify regions of the CpG islands that are significantly altered between the two datasets. Some of these regions were validated for their methylation as a proof of principle for the method.

2009-04-28 | E-GEOD-15746 | biostudies-arrayexpress

Transcription profiling of human breast cell lines and one normal RNA sample

Project description:Total RNA from seven breast cell lines and one normal RNA samples was labelled using the Illumina TotalPrep RNA Amplification kit (Ambion) following manufacturer's instructions. 1.5 ug of biotin-labelled cRNA were used for each hybridisation on Sentrix Human-6 BeadChips (Illumina, San Diego, CA) following manufacturer's protocol.

2007-11-17 | E-TABM-194 | biostudies-arrayexpress

Proteomic analysis reveals critical immunomolecular mechanisms in macrophage anti-tuberculosis processes

Project description:Tuberculosis infection activates the autoimmune system. However, the role of autoimmunity after Mycobacterium tuberculosis infection is unclear. In this study, liquid chromatography-tandem mass spectrometry (LC-MS/MS) combined with tandem mass spectrometry (TMT) was used to perform proteomic analysis of five spinal tuberculosis and five protruding disc tissue samples. The identification of key molecular mechanisms provides a molecular target for future treatment of spinal tuberculosis, which may significantly improve patients' quality of life and prognosis.

2021-01-04 | PXD022541 | Pride

Transcription profiling of Pectobacterium atrosepticum wild and ExpI mutants to determine the quorum sensing regulon

Project description:Genome-wide in planta determination of the quorum sensing regulon in Pectobacterium atrosepticum, through gene expression analysis of ExpI mutants using Agilent custom microarrays.

2008-07-01 | E-TABM-384 | biostudies-arrayexpress

Molecular characterization of head and neck cancer cell model genomes

Project description:To provide full characterization of genome changes in six commonly used head and neck cancer cell lines. These data will serve as an excellent resource when designing future experiments that attempt to model HNSCC behaviour. Six commonly used ATCC head and neck cancer cell lines are analyzed.

2010-06-25 | E-GEOD-16872 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data