Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

9 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Expression data from knockdown and Sendai virus induction experiments in Human cells

ABSTRACT: We have carried out transcriptional profile analysis in macroH2A knockdown cells (Namalwa B cells and HeLa cells) and demonstrated that this histone variant plays positive and negative roles in transcription. We also demonstrated the role of macroH2A in regulating the response to Sendai Virus infection. three biological replicates on Affymetrix HG133plus2.0 chips.

ORGANISM(S): Homo sapiens

SUBMITTER: Alexander Polyzos

PROVIDER: E-GEOD-53103 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Expression data from knockdown and Sendai virus induction experiments in Human cells

Project description:We have carried out transcriptional profile analysis in macroH2A knockdown cells (Namalwa B cells and HeLa cells) and demonstrated that this histone variant plays positive and negative roles in transcription. We also demonstrated the role of macroH2A in regulating the response to Sendai Virus infection.

2015-05-06 | GSE53103 | GEO

Small RNA profiling during Sendai virus infection

Project description:Small RNAs were profiled during Sendai virus infection of human A549 cells to identify changes in microRNA abundance during the cellular antiviral response. Examination of microRNA abundance during Sendai virus infection.

2013-06-10 | E-GEOD-43966 | biostudies-arrayexpress

Transcription profiling of mouse C57BL/6J strain infected with Sendai virus vs. UV irradiated virus to investigate virus-induced airway disease

Project description:Analysis of gene expression in lungs of C57BL/6J mice that develop chronic airway disease phenotypes after a single Sendai virus infection, compared with mice treated with UV-inactivated virus. Experiment Overall Design: Whole lung RNA was analyzed from 3 mice per condition per time point for days 21 and 49 post infection, Sendai virus versus UV-inactivated virus, C57BL/6J mouse strain.

2008-06-20 | E-GEOD-10964 | biostudies-arrayexpress

Phosphoproteome characterization of Sendai-virus infection in human epithelial cells

Project description:We used phosphoproteomics combined with bioinformatics to characterize the global cellular protein phosphorylation events during Sendai virus infection in human lung epithelial cells.

2015-03-17 | PXD001561 | Pride

DNA Methylation in Hodgkin's and non-Hodgkin's lymphoma

Project description:We report corresponding gene expression, promoter methylation patterns of differential DHSs as well as differentially occupied TF binding motifs using surrounding DNAseI cut profiles. Overall, our study provides a framework for model studies of HL and NHL pathologies. Examination of DNA Methylation in L1236, L428, Reh and Namalwa cell lines.

2014-09-24 | E-GEOD-51813 | biostudies-arrayexpress

Transcription profiling of mouse lung from individuals with airway hyperactivity and goblet cell metaplasia post-Sendai virus infection

Project description:Mice representing phenotypic extremes of airway hyperreactivity and goblet cell metaplasia post-Sendai virus infection were identified from a 500 mouse F2 cohort (CB6F2/J). Whole lung RNA from 3 mice at each extreme was analyzed via microarray for gene expression. Subsequent pairwise comparisons between arrays allowed the identification of genes differentially expressed with respect to the disease phenotypes (airway hyperreactivity and goblet cell metaplasia).

2007-07-06 | E-GEOD-3925 | biostudies-arrayexpress

Time course ChIP-seq analysis of the human GM12878 lymphoblasts upon Sendai Virus infection

Project description:Time course ChIP-seqwas performed to determine global changes in histone H3 lysine 27 acetylation (H3K27Ac) at enhancers upon Sendai Virus infection.

2018-10-07 | E-MTAB-6050 | biostudies-arrayexpress

Airway Epithelial Cell Response to Sendai virus infection

Project description:Oligonucleotide microarrays were used to establish a profile for gene expression in wild-type airway epithelial cells after paramyxoviral infection. Analysis was performed on mRNA isolated from SeV-infected primary-culture mouse tracheal epithelial cells that were maintained under physiologic conditions (air-liquid interface). Experiment Overall Design: Primary-culture mouse tracheal epithelial cells (mTECs) were established on Transwell membranes using air-liquid interface (ALI) conditions. Sendai virus (SeV), strain 52, was obtained from American Type Culture Collection and stored at -70Â°C. Cultures were inoculated with SeV or an equivalent amount of UV-inactivated SeV (SeV-UV) in the apical compartment for 1 h at 37 Â°C. Air-liquid-interface conditions were re-established by washing the membrane with PBS. Each culture well was subjected to one of two treatments (SeV, or UV-SeV) for 1 day. N = 4 SeV wells, N = 6 UV-SeV wells, with each well independently analyzed by microarray. No technical replicates were performed, but arrays were evaluated for quality control using the SimpleAffy package (Miller CJ, 2004) in Bioconductor 2.0.

2009-04-25 | E-GEOD-10211 | biostudies-arrayexpress

Genome-wide Dnase-Seq profiles in Hodgkin's and non-Hodgkin's lymphoma

Project description:We report corresponding gene expression, promoter methylation patterns of differential DHSs as well as differentially occupied TF binding motifs using surrounding DNAseI cut profiles. Overall, our study provides a framework for model studies of HL and NHL pathologies. Examination of genome-wide DNaseI hypersensitive sites in L1236, L428, L591, Reh and Namalwa cell lines.

2014-09-24 | E-GEOD-51726 | biostudies-arrayexpress

Transcription profiling of mouse macrophage response to sendai virus infection.

Project description:Thus, mouse macrophage cultures were established from PBMCs isolated from wild-type control mice and were inoculated with SeV (Sendai virus) or UV-SeV (UV-inactivated SeV). These microarrays were performed in concert with assays of CCL5 and CCR5 expression, viral replication, and cellular apoptosis. Initial experiments indicated that wild-type mouse macrophages inoculated with SeV exhibit induction of CCL5 mRNA to the highest level of any known mouse gene product, while mRNA levels for CCL5 receptors (CCR5 as well as CCR3 and CCR1) or alternative ligands for these receptors (CCL3 and CCL4) were relatively unchanged by viral infection. Experiment Overall Design: Macrophages were pooled from mice and subsequently cultured (~3 mice/well). Each culture well was then subjected to one of two treatments (SeV, or UV-SeV) for 4 days. Thus, per condition, N = 2 culture wells, with each well independently analyzed by microarray. No technical replicates were performed, but arrays were evaluated for quality control using the SimpleAffy package (Miller CJ, 2004) in Bioconductor 1.5.

2008-06-12 | E-GEOD-2935 | 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