Dataset features

Specifications


Application: ChIP-seq analysis
Number of samples: 43
Release date: Aug 24 2017
Last update date: Nov 29 2018
Access: Public
Diseases: Neoplasms, Sarcoma, Ewing
Chemicals: Tyrosine
Dataset link Cancer-specific retargeting of BAF complexes by a prion-like domain [ChIP-Seq]

Experimental Protocol


ChIP-seq for the BAF complex subunits BAF155 and SMARCA2 in Ewing sarcoma cells (SK-N-MC). EWS-FLI1 was knocked-down with lentiviral shRNA. HA-tagged EWSR1 was expressed in Ewing sarcoma cells (A673) using a lentiviral expression vector and ChIP-seq was performed using an anti-HA antibody. ChIP-seq for the histone modification H3K27ac, the transcription factor FLI1 and the BAF subunit BAF155 in mesenchymal stem cells (MSC). EWS-FLI1, wild-type FLI1 and the mutant proteins EWS(YS37)-FLI1, SYGQ2-FLI1 and BAF47-FLI1 were expressed in MSCs with lentiviral expression vectors. The FLI1 antibody used recognizes FLI1, EWS-FLI1 and the mutant proteins. Raw data not provided for primary cells due to patient privacy concerns. Submitter states that the raw data for these samples will be submitted to dbGaP.

Repositories


GEO

GSE94275

ENA

SRP098569

BioProject

PRJNA369229

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Contact


Sowmya Iyer