SRX16499856
GSM6373224: TF ChIP-seq from WTC11 (ENCLB931FIN); Homo sapiens; ChIP-Seq

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
SMAD4

Cell type

Cell type Class
Pluripotent stem cell
Cell type
iPS cells
NA
NA

Attributes by original data submitter

Sample

age
30 year
sample type
cell line
cell line
WTC11
sex
male
dev stage
adult
donor ID
ENCDO882UJI
lab
Richard Myers, HAIB
source
Richard Myers

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
pipeline protocol: https://www.encodeproject.org/documents/efac5344-6834-4e12-b971-94994d992e86/@@download/attachment/ChIP-seq_Mapping_Pipeline_Overview.pdf pipeline protocol: https://www.encodeproject.org/documents/d00ffce2-e72c-44d7-a71f-73fd163c2426/@@download/attachment/ChIP-seq_pipeline_overview.pdf extraction protocol: https://www.encodeproject.org/documents/73c95206-fc02-41ea-93e0-a929a6939aaf/@@download/attachment/ChIP-seq%20protocol%2C%20ENCODE4%2C%20Myers%20Lab.pdf pipeline protocol: https://www.encodeproject.org/documents/efac5344-6834-4e12-b971-94994d992e86/@@download/attachment/ChIP-seq_Mapping_Pipeline_Overview.pdf, pipeline protocol: https://www.encodeproject.org/documents/d00ffce2-e72c-44d7-a71f-73fd163c2426/@@download/attachment/ChIP-seq_pipeline_overview.pdf, extraction protocol: https://www.encodeproject.org/documents/73c95206-fc02-41ea-93e0-a929a6939aaf/@@download/attachment/ChIP-seq%20protocol%2C%20ENCODE4%2C%20Myers%20Lab.pdf

Sequencing Platform

instrument_model
Illumina NovaSeq 6000

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads
49248114
Reads aligned (%)
89.0
Duplicates removed (%)
11.9
Number of peaks
1891 (qval < 1E-05)

hg19

Number of total reads
49248114
Reads aligned (%)
88.6
Duplicates removed (%)
12.6
Number of peaks
1581 (qval < 1E-05)

Base call quality data from DBCLS SRA