Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Pluripotent stem cell
Cell type
mESC derived neural cells
NA
NA

Attributes by original data submitter

Sample

source_name
Neural Progenitor cell (NPC)
antibody
Rabbit IgG Abcam, ab37415
cell type
Neural Progenitor cell (NPC)
cell line
E14TG2a

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
NPC were crosslinked in 1% formaldehyde for 10 min at room temperature. Crosslinking was quenched with 0.125 M glycine for 5 min. Pelleted cells were lysed in 1 ml ChIP buffer and sonicated for 12 min in a Bioruptor. ChIP-Seq experiments were performed as previously described (Morey et al, Cell Stem Cell. 2012, 10: 47-62) It was performed using the NEBNext DNA Sample Prep Reagents Set 1

Sequencing Platform

instrument_model
Illumina Genome Analyzer IIx

mm10

Number of total reads
31669262
Reads aligned (%)
80.8
Duplicates removed (%)
15.8
Number of peaks
598 (qval < 1E-05)

mm9

Number of total reads
31669262
Reads aligned (%)
80.7
Duplicates removed (%)
15.9
Number of peaks
639 (qval < 1E-05)

Base call quality data from DBCLS SRA