Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

POLK ChIP-seq data

ABSTRACT: POLK ChIP-seq data

PROVIDER: PRJNA911577 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR23438320_1.fastq.gz	Fastqsanger.gz
	SRR23438320_2.fastq.gz	Fastqsanger.gz
	SRR23438321_1.fastq.gz	Fastqsanger.gz
	SRR23438321_2.fastq.gz	Fastqsanger.gz
	SRR23438322_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 28

Similar Datasets

Identification of ChIP-seq and RIME grade antibodies for Estrogen Receptor alpha

Project description:Estrogen Receptor alpha (ERα) is a key driver of most breast cancers, and it is the target of endocrine therapies used in the clinic to treat women with ERα positive (ER+) breast cancer. The two methods ChIP-seq (chromatin immunoprecipitation coupled with deep sequencing) and RIME (Rapid Immunoprecipitation of Endogenous Proteins) have greatly improved our understanding of ERα function during breast cancer progression and in response to anti-estrogens. A critical component of both ChIP-seq and RIME protocols is the antibody that is used to pull down the bait protein. To date, most of the ChIP-seq and RIME experiments for the study of ERα have been performed using the sc-543 antibody from Santa Cruz Biotechnology. However, this antibody has been discontinued, thereby severely impacting the study of ERα in normal physiology as well as diseases such as breast cancer and ovarian cancer. Here, we compare the sc-543 antibody with other commercially available antibodies, and we show that 06-935 (EMD Millipore) and ab3575 (Abcam) antibodies can successfully replace the sc-543 antibody for ChIP-seq and RIME experiments.

2019-03-21 | PXD012930 | Pride

ChIP-seq data for Glioma

Project description:ChIP-seq data for Glioma

| PRJNA705208 | ENA

modENCODE_White Lab: genome-wide ChIP-chip and ChIP-Seq data

Project description:modENCODE_White Lab: genome-wide ChIP-chip and ChIP-Seq data

| PRJNA131759 | ENA

Chip-seq data for HNSCC subtypes

Project description:Chip-seq data for HNSCC subtypes

| PRJNA769445 | ENA

Chip-seq data for KMT2D HNSCC

Project description:Chip-seq data for KMT2D HNSCC

| PRJNA769444 | ENA

ChIP-Seq Data of purified hepatocytes

Project description:ChIP-Seq Data of purified hepatocytes

| PRJNA1002232 | ENA

ChIP-seq and RNA-seq data for Glioma

Project description:ChIP-seq and RNA-seq data for Glioma

| PRJNA705206 | ENA

POLH ChIP-seq data in HEK293T cells

Project description:POLH ChIP-seq data in HEK293T cells

| PRJNA838014 | ENA

BGISEQ-500 ChIP-Seq SE50 demo data

Project description:BGISEQ-500 ChIP-Seq SE50 demo data

| PRJEB20179 | ENA

ChIP-PED enhances the analysis of ChIP-seq and ChIP-chip data.

Project description:MotivationAlthough chromatin immunoprecipitation coupled with high-throughput sequencing (ChIP-seq) or tiling array hybridization (ChIP-chip) is increasingly used to map genome-wide-binding sites of transcription factors (TFs), it still remains difficult to generate a quality ChIPx (i.e. ChIP-seq or ChIP-chip) dataset because of the tremendous amount of effort required to develop effective antibodies and efficient protocols. Moreover, most laboratories are unable to easily obtain ChIPx data for one or more TF(s) in more than a handful of biological contexts. Thus, standard ChIPx analyses primarily focus on analyzing data from one experiment, and the discoveries are restricted to a specific biological context.ResultsWe propose to enrich this existing data analysis paradigm by developing a novel approach, ChIP-PED, which superimposes ChIPx data on large amounts of publicly available human and mouse gene expression data containing a diverse collection of cell types, tissues and disease conditions to discover new biological contexts with potential TF regulatory activities. We demonstrate ChIP-PED using a number of examples, including a novel discovery that MYC, a human TF, plays an important functional role in pediatric Ewing sarcoma cell lines. These examples show that ChIP-PED increases the value of ChIPx data by allowing one to expand the scope of possible discoveries made from a ChIPx experiment.Availabilityhttp://www.biostat.jhsph.edu/~gewu/ChIPPED/

| S-EPMC3658457 | biostudies-literature

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