SRX2731950
GSM2572589: input-PVT1sgRNAR2-rep1; Homo sapiens; ChIP-Seq

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Breast
Cell type
MDA-MB-231
Primary Tissue
Breast
Site of Extraction
Effusion, Pleural
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
MDA-MB-231 clonal cell line expressing dCas9-BFP-KRAB construct
cell line
MDA-MB-231
genotype
PVT1 Knockdown
antibody
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
described in doi:10.1016/j.cell.2011.09.057 (2011) NEB UltraII NEBnext ultra-II kit (NEB, #E7645)

Sequencing Platform

instrument_model
Illumina HiSeq 4000

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads
11571621
Reads aligned (%)
85.0
Duplicates removed (%)
1.8
Number of peaks
694 (qval < 1E-05)

hg19

Number of total reads
11571621
Reads aligned (%)
82.8
Duplicates removed (%)
2.4
Number of peaks
276 (qval < 1E-05)

Base call quality data from DBCLS SRA