Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K27me1

Cell type

Cell type Class
Unclassified
Cell type
Unclassified
NA
NA

Attributes by original data submitter

Sample

source_name
whole organ
cell type
brain, skeletal muscle, duodenum, pancreas, lungs, liver, heart, spleen
provider/strain
wild-type (WT) FVB/NJ; 9 weeks old, male
chip antibody
H3K27ac (Diagenode, C15410196, lot A1723-041D)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
RELACS: nuclei have been extracted, permeabilized and barcoded following RELACS protocol. Nuclei labeled with distinct barcodes have been pooled and lysed to complete chromatin preparation. Traditional ChIP-seq: after nuclei extraction chromatin has been fragmented by sonication. Immunoprecipitation has been performed using the antibody of interest. RELACS libraries: as described in the paper, using A-tailing strategy and ligation of adapters containing nuclear barcodes. After ChIP and DNA purification library preparation has been completed by PCR amplification using NEB workflow (NEBNext Ultra II DNA library preparation kit (E7645L, NEB)). Traditional ChIP-seq libraries: NEBNext Ultra II DNA library preparation kit (E7645L, NEB)

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
329871438
Reads aligned (%)
87.8
Duplicates removed (%)
45.1
Number of peaks
21875 (qval < 1E-05)

mm9

Number of total reads
329871438
Reads aligned (%)
87.7
Duplicates removed (%)
45.0
Number of peaks
21884 (qval < 1E-05)

Base call quality data from DBCLS SRA