Antigen

Antigen Class

TFs and others

Antigen

ATF4

Cell type

Cell type Class

Others

Cell type

Mesenchymal stem cells

NA

NA

Sample

source_name

hMSC

cell type

Human Mesenchymal Stem Cells

chip antibody

ATF4, sc-200, Santa Cruz

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Cell pellets were prepared from 1.8x106 cells, crosslinked in 1 % formaldehyde for 15 minutes. A 5 minute quench was performed with 125mM glycine. Cells were harvested from 10 or 15cm dishes in DPBS using a cell scraper. To prepare ChIP extracts, nuclei were suspended SDS lysis buffer (50 mM HEPES/NaOH pH 7.5, 1% SDS, 10 mM EDTA, Complete protease inhibitor), incubated at 4 C for 10 min, and subjected to microtip probe sonication under conditions optimized for IP efficiency. ChIP-Seq libraries were produced and sequenced according to Illumina protocols. Libraries were multiplexed for sequencing.

Sequencing Platform

instrument_model

Illumina HiSeq 2500

hg19

Number of total reads

39758740

Reads aligned (%)

63.3

Duplicates removed (%)

28.6

Number of peaks

6032 (qval < 1E-05)

hg38

Number of total reads

39758740

Reads aligned (%)

65.3

Duplicates removed (%)

27.1

Number of peaks

6232 (qval < 1E-05)