SRX2007549
GSM2264588: MCF7 H3K4me3 ShCtrl 1; Homo sapiens; ChIP-Seq

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Breast
Cell type
MCF-7
Primary Tissue
Breast
Site of Extraction
Pleura
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
MCF-7 breast cancer cells
chip antibody
H3K4me3 antibody Abcam (Ab8580)
cell line
MCF-7
induced
ShCtrl

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were crosslinked, lysed in a buffer containing SDS and sonicated. ThruPLEX-FD Prep kit, Rubicon Genomics

Sequencing Platform

instrument_model
NextSeq 500

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads
28440256
Reads aligned (%)
68.3
Duplicates removed (%)
7.8
Number of peaks
23804 (qval < 1E-05)

hg19

Number of total reads
28440256
Reads aligned (%)
67.5
Duplicates removed (%)
8.5
Number of peaks
23590 (qval < 1E-05)

Base call quality data from DBCLS SRA