Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Genome-wide mapping of H3K27Me3 in mouse rib chondrocytes

ABSTRACT: We performed ChiP sequencing analysis for H3K27Me3 in DNA from mouse rib chondrocytes.

ORGANISM(S): Mus musculus

PROVIDER: GSE67132 | GEO | 2015/09/15

SECONDARY ACCESSION(S): PRJNA279022

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Genome-wide mapping of H3K27Me3 in mouse rib chondrocytes

Project description:We performed ChiP sequencing analysis for H3K27Me3 in DNA from mouse rib chondrocytes. Chromatin immunoprecipitation for H3K27Me3 in mouse rib chondrocytes after overnight culture.Chromatin Immunoprecipitation was performed using Cell Signaling Technology SimpleChIP Plus Enzymatic Chromatin IP Kit (Magnentic Beads) #9005 Sequencing using Next Generation Sequencing (Otogenetics), mapping of reads using DNA Nexus mapper and region calling using Quest software (DNA Nexus)

2015-09-15 | E-GEOD-67132 | biostudies-arrayexpress

RNA-seq data from mouse newborn rib chondrocytes

Project description:To understand the targets of Sox5, Sox6 and Sox9, we overexpressed Sox5/6/9 in mouse newborn rib chondrocytes and expression analysis by RNA-seq.

2021-01-20 | GSE155118 | GEO

RNA-seq data from mouse newborn rib chondrocytes

Project description:RNA-seq data from mouse newborn rib chondrocytes

| PRJNA648650 | ENA

Genome-wide mapping of DNA hydroxymethylation in osteoarthritic chondrocytes [methylation]

2015-06-30 | E-GEOD-64393 | biostudies-arrayexpress

Genome-wide mapping of DNA hydroxymethylation in osteoarthritic chondrocytes [expression]

Project description:Examination of the genome-wide distribution of 5hmC in osteoarthritic chondrocytes compared to normal chondrocytes in order to elucidate the effect on OA-specific gene expression. 5hmC-sequencing was performed and data was compared with microarray gene expression data to identify genes with differential expression between normal and OA chondrocytes that are potentially under epigenetic regulation. Gene expression patterns were examined by comparing the 5 normal samples to the 2 OA samples to assess the changing expression profiles between normal and OA chondrocytes. We analyzed the changes in gene expression in OA; genes with a fold-change ≥ or ≤1.5 or 1.2, with a difference in intensity of >100 and within the lower 90% confidence bound, were selected.

2015-06-30 | E-GEOD-64394 | biostudies-arrayexpress

Analysis of gene expression levels in BBF2H7-/- chondrocytes

Project description:BBF2H7 (BBF2 human homolog on chromosome 7), an ER-resident basic leucine zipper transcription factor, is activated in response to ER stress and abundantly expresses in chondrocytes. While BBF2H7 is widely expressed in many tissues and organs, the most intense signals were detected in the proliferating zone of the cartilage. We compared gene expressions in primary cultured chondrocytes prepared from rib cartilage between WT and BBF2H7-/- mice at E18.5. Primary cultured chondrocytes were prepared from E18.5 rib cartilage of WT and BBF2H7-/- mice. Chondrocytes were isolated using 0.2% collagenase D (Roche) after adherent connective tissue was removed by 0.2% trypsin (Sigma) and collagenase pretreatment. Isolated chondrocytes were maintained in Î±-MEM (Gibco) supplemented with 10% FCS and 50 Âµg/mL ascorbic acid. Adenovirus vectors expressing the mouse p60 BBF2H7 (1-377 aa, BBF-N) were constructed with the AdenoX Expression system (Clontech), according to the manufacturerâs protocol. The cells were infected with adenoviruses 30 h before analysis. We compared gene expressions in primary cultured chondrocytes prepared from rib cartilage between WT and BBF2H7-/- mice at E18.5 using a microarray and various genes associated with protein secretory pathway and ER biogenesis were significantly down-regulated in BBF2H7-/- chondrocytes. We infected primary cultured chondrocytes prepared from BBF2H7-/- mice with adenovirus expressing p60 BBF2H7. Several genes were up-regulated and we picked up them as the direct target of BBF2H7.

2010-05-05 | E-GEOD-18052 | biostudies-arrayexpress

Genome-wide mapping of DNA hydroxymethylation in osteoarthritic chondrocytes [expression]

2015-06-30 | GSE64394 | GEO

Genome-wide mapping of DNA hydroxymethylation in osteoarthritic chondrocytes [methylation]

2015-06-30 | GSE64393 | GEO

Genome wide mapping of H3K27me3 in differentiated mouse podocytes

Project description:We explored H3K27me3 binding sites in the genome of differentiated, conditionally immortalized mouse podocytes. Cells were allowed to differentiate for 14 days, following thermoshifting, before treatment with either vehicle (DMSO) or the S-adenosylhomocysteine hydrolase inhibitor 3-deazaneplanocin A (DZNep, 5ÂµM for 48 hours) which degrades the histone methyltransferase, EZH2 ordinarily responsible for H3K27 trimethylation (H3K27me3). DNA was immunopreciptated with an H3K27me3-specific antibody. Studying H3K27me3 modification in Mouse Podocyte

2015-12-09 | E-GEOD-69610 | biostudies-arrayexpress

Genome wide mapping of H3K27me3 in differentiated mouse podocytes

Project description:We explored H3K27me3 binding sites in the genome of differentiated, conditionally immortalized mouse podocytes. Cells were allowed to differentiate for 14 days, following thermoshifting, before treatment with either vehicle (DMSO) or the S-adenosylhomocysteine hydrolase inhibitor 3-deazaneplanocin A (DZNep, 5µM for 48 hours) which degrades the histone methyltransferase, EZH2 ordinarily responsible for H3K27 trimethylation (H3K27me3). DNA was immunopreciptated with an H3K27me3-specific antibody.

2015-12-09 | GSE69610 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

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