SRX11161903
GSM5379019: TF ChIP-seq from SK-N-SH (ENCLB437BKB); Homo sapiens; ChIP-Seq

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
TCF4

Cell type

Cell type Class
Neural
Cell type
SK-N-SH
Primary Tissue
Brain
Tissue Diagnosis
Neuroblastoma

Attributes by original data submitter

Sample

biosample type
cell line
cell line
SK-N-SH
sex
female
health state
Metastatic neuroblastoma from bone marrow
dev_stage
child
age
4 year
donor ID
ENCDO000ABD
lab
Michael Snyder, Stanford
source
Michael Snyder
treatments
treatment_term_id: CHEBI:15367; treatment_term_name: all-trans-retinoic acid; treatment_type: chemical; duration: 48; duration_units: hour;

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
general protocol: https://www.encodeproject.org/documents/716003cd-3ce7-41ce-b1e3-6f203b6632a0/@@download/attachment/ENCODE4%20_Snyder_ChIP-seq_BiorupterTruSeqProtocol_v1.pdf

Sequencing Platform

instrument_model
Illumina HiSeq 4000

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads
37020918
Reads aligned (%)
98.0
Duplicates removed (%)
23.8
Number of peaks
19474 (qval < 1E-05)

hg19

Number of total reads
37020918
Reads aligned (%)
97.2
Duplicates removed (%)
24.0
Number of peaks
18918 (qval < 1E-05)

Base call quality data from DBCLS SRA