Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Unclassified
Antigen
Unclassified

Cell type

Cell type Class
Neural
Cell type
BV-2
Primary Tissue
Brain
Tissue Diagnosis
Unknown

Attributes by original data submitter

Sample

source_name
BV2
cell line
BV2

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP-seq, samples were fixed for 10 minutes with 1% formaldehyde. Fixation was stopped by adding Glycine (0.125M). Chromatin DNA was sheared to 200–500 bp size by sonication. Soluble sheared chromatin was immunoprecipitated with specific antibodies overnight at 4°C. Next day, lysates were incubated in prewashed protein G dynabeads (Invitrogen). After washing and elution, the protein–DNA complex was decross-linked by heating at 65°C for 4 hours. Immunoprecipitated DNA was purified by using QIAquick PCR purificaion kit. The libraries were constructed following Illumina’s Chip-Seq Sample prep kit.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
19134896
Reads aligned (%)
92.2
Duplicates removed (%)
14.5
Number of peaks
295 (qval < 1E-05)

mm9

Number of total reads
19134896
Reads aligned (%)
91.9
Duplicates removed (%)
14.6
Number of peaks
335 (qval < 1E-05)

Base call quality data from DBCLS SRA