Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Pluripotent stem cell
Cell type
ES cells
NA
NA

Attributes by original data submitter

Sample

source_name
Derived from mESCs
strain
C57BL/6
cell type
neural stem cellsderived from mouse embryonic stem cells
differentiation day
0
passages
25-30
chip antibody
None

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were fixed in 1% HCHO and lysed in 1% SDS lysis buffer. Chromatin was sheared to 300bp and immunoprecipitated with antibodyies against H3K4me3, H3K27me3, total histone H3 and IgG. Total H3 was from Abcam (ab1791) and rabbit IgG from Santa Cruz (SC-2027) were used to precipitate all samples, in addition to the IPs done with H3K4me3 and H3K27me3. Only the K4/K27 were sequenced. Libraries were prepared according to standard Illumina Solexa protocols

Sequencing Platform

instrument_model
Illumina Genome Analyzer

mm10

Number of total reads
27442367
Reads aligned (%)
92.3
Duplicates removed (%)
5.6
Number of peaks
501 (qval < 1E-05)

mm9

Number of total reads
27442367
Reads aligned (%)
92.1
Duplicates removed (%)
5.7
Number of peaks
550 (qval < 1E-05)

Base call quality data from DBCLS SRA