Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Human variation in PolII and NF-KappaB binding (RNA-seq study with TNF-alpha induced)

ABSTRACT: We examined genome-wide variation in transcription factor binding in different individuals and a chimpanzee using chromatin immunoprecipitation followed by massively-parallel sequencing (ChIP-Seq). The binding sites of RNA Polymerase II (Pol II) as well as a key regulator of immune responses, NFkB, were mapped in ten HapMap lymphoblastoid cell lines derived from individuals of African, European, and Asian ancestry, including a parent-offspring trio. We also mapped gene expression in all ten human cell lines for two treatment conditions: a) no treatment and b) following induction by TNF-alpha.

ORGANISM(S): Homo sapiens

PROVIDER: GSE19481 | GEO | 2010/03/22

SECONDARY ACCESSION(S): PRJNA123947

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Human variation in PolII and NF-KappaB binding (ChIP-seq study with NF-KappaB)

Project description:We examined genome-wide variation in transcription factor binding in different individuals and a chimpanzee using chromatin immunoprecipitation followed by massively-parallel sequencing (ChIP-Seq). The binding sites of RNA Polymerase II (Pol II) as well as a key regulator of immune responses, NFkB, were mapped in ten HapMap lymphoblastoid cell lines derived from individuals of African, European, and Asian ancestry, including a parent-offspring trio. We also mapped gene expression in all ten human cell lines for two treatment conditions: a) no treatment and b) following induction by TNF-alpha.

2010-03-22 | GSE19485 | GEO

Human variation in PolII and NF-KappaB binding (ChIP-seq study with Pol II)

2010-03-22 | GSE19484 | GEO

Human variation in PolII and NF-KappaB binding (ChIP-seq study with NF-KappaB)

2010-03-22 | E-GEOD-19485 | biostudies-arrayexpress

Human variation in PolII and NF-KappaB binding (RNA-seq study uninduced by TNF-alpha)

2010-03-22 | GSE19466 | GEO

Human variation in PolII and NF-KappaB binding (RNA-seq study with TNF-alpha induced)

2010-03-22 | E-GEOD-19481 | biostudies-arrayexpress

Human variation in PolII and NF-KappaB binding (RNA-seq study uninduced by TNF-alpha)

2010-03-22 | E-GEOD-19466 | biostudies-arrayexpress

Human variation in PolII and NF-KappaB binding (ChIP-seq study with Pol II)

2010-03-22 | E-GEOD-19484 | biostudies-arrayexpress

Germline Copy Number Variants are Associated with Methylation Variation in the Genome

Project description:Illumina methylation 27 array (Illumina) analysis was performed on 24 HapMap individuals including one CEU trio (family 1463 including NA12878, NA12891, NA12892) and one YRI trio (family Y117 including NA19240, NA19238, NA19239)

2020-10-05 | GSE114131 | GEO

Custom array CGH validation of de novo CNVs in CEU HapMap samples

Project description:This is the validation data for candidate de novo CNV calls made in the CEU Hapmap by Itsara et al., Genome Research 2010. In this study, de novo CNV calls were initially made with Illumina 1M SNP arrays. Validation of CNV calls was performed with Nimblegen custom array CGH using the extended CEPH pedigrees. A truly de novo CNV would be unobserved in the first generation (CEU trio parents), validated in the second generation (CEU trio children), and assuming no selective effects, transmitted to approximately half of the individuals in the third generation. We attempted validation of 4 de novo CNVs in 3 extended CEPH pedigrees: 1358, 1408, and 1459.

2010-09-01 | GSE23575 | GEO

Individual-specific and allele-specific chromatin signatures in diverse human populations

Project description:This dataset contains DNase-seq data and CTCF ChIP-seq data for 6 lymphoblastoid cell lines. There are 3 cell lines from a YRI trio and 3 lines from a CEU trio (HapMap GM19238, GM19239, GM 19240, GM12891, GM12892, GM12878). For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf

2010-03-15 | GSE19622 | 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