Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Profiling of Gata1 binding in primary erythroid cells by CUT&RUN

ABSTRACT: Profiling of Gata1 binding in primary erythroid cells by CUT&RUN

PROVIDER: PRJNA719369 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

Profiling of Gata1 binding in primary erythroid cells by CUT&RUN

Project description:The chromatin landscape of developing erythroblasts changes dramatically during differentiation. We have profiled the change in Gata1 binding in primary erythroid cells entering terminal differentiation using CUT&RUN.

2022-06-27 | GSE171383 | GEO

Profiling of Gata2 binding in primary erythroid cells by CUT&RUN

Project description:The chromatin landscape of developing erythroblasts changes dramatically during differentiation. We have profiled the change in Gata2 binding in primary erythroid cells entering terminal differentiation using CUT&RUN.

2022-06-27 | GSE171384 | GEO

Profiling of Nf-e2 binding in primary erythroid cells by CUT&RUN

Project description:The chromatin landscape of developing erythroblasts changes dramatically during differentiation. We have profiled the change in Nf-e2 binding in primary erythroid cells entering terminal differentiation using CUT&RUN.

2022-10-31 | GSE171389 | GEO

Profiling of H3K4me3 positioning in primary erythroid cells by CUT&RUN

Project description:The chromatin landscape of developing erythroblasts changes dramatically during differentiation. We have profiled the localisation of H3K4me3 in primary erythroid cells entering terminal differentiation using CUT&RUN.

2022-10-31 | GSE171388 | GEO

Profiling of H3K4me1 positioning in primary erythroid cells by CUT&RUN

Project description:The chromatin landscape of developing erythroblasts changes dramatically during differentiation. We have profiled the localisation of H3K4me1 in primary erythroid cells entering terminal differentiation using CUT&RUN.

2022-10-31 | GSE171387 | GEO

Profiling of H3K27me3 positioning in primary erythroid cells by CUT&RUN

Project description:The chromatin landscape of developing erythroblasts changes dramatically during differentiation. We have profiled the localisation of H3K27me3 in primary erythroid cells entering terminal differentiation using CUT&RUN.

2022-10-31 | GSE171386 | GEO

Profiling of Gata2 binding in primary erythroid cells by CUT&RUN

Project description:Profiling of Gata2 binding in primary erythroid cells by CUT&RUN

| PRJNA719368 | ENA

Demonstration of CUT&RUN motif footprint analysis using key blood progenitor transcription factors

Project description:We introduce CUT&RUNTools (https://bitbucket.org/qzhudfci/cutruntools/) as a flexible, general pipeline for facilitating the identification of chromatin-associated protein binding and genomic footprinting analysis from antibody-targeted CUT&RUN primary cleavage data. CUT&RUNTools extracts endonuclease cut site information from sequences of short read fragments and produces single-locus binding estimates, aggregate motif footprints, and informative visualizations to support the high-resolution mapping capability of CUT&RUN. We illustrate the functionality of CUT&RUNTools through analysis of CUT&RUN data acquired for GATA1, a master regulator in erythroid lineage cells. Results were compared initially to published GATA1 ChIP-seq data for cells under the same conditions. We performed de novo analysis of CUT&RUN peaks to retrieve not only GATA1’s primary motif, but also the GATA1-TAL1 composite motif, and co-factor motifs GCCCCGCCTC, CMCDCCC, and RTGASTCA that correspond to SP1, KLF1, and NFE2 co-factors. Cofactor binding was verified by independent TAL1 and KLF1 CUT&RUN, and other ChIP-seq experiments. CUT&RUNTools also generated base-pair resolution motif footprint for sequence-specific binding factors, and located likely direct binding sites by quantifying log-odds of binding scores. Overall, CUT&RUNTools should enable biologists to realize advantages of cleavage data provided by CUT&RUN, and make high-quality footprinting analysis accessible to a broad audience.

2019-08-24 | GSE136251 | GEO

CUT&RUN HUDEP1 OE SOX6-Flag

Project description:SOX6 CUT&RUN on HUDEP1 over expressing SOX6-Flag. The experiment is done using and anti Flag Ab to assist the genome wide binding profile of SOX6 in HUDEP1 (Human Umbilical cord blood-Derived Erythroid Progenitor-1).

2023-04-07 | E-MTAB-12800 | biostudies-arrayexpress

Lipidomics of GATA1 mutant cells during erythroid maturation

Project description:RP-LC-MS lipidomics data was collected to understand the role of GATA1 during erythroid maturation. GATA1 mutants and WT cells were treated with or without beta-estradiol. GATA1 mutant cells were additionally treated with or without 5-ALA.

| MSV000092894 | MassIVE

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