SRX7089260
GSM4146475: DNase-seq from esophagus squamous epithelium (ENCLB661JJQ); Homo sapiens; DNase-Hypersensitivity

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
DNase-seq
Antigen
DNase-Seq

Cell type

Cell type Class
Digestive tract
Cell type
Esophagus squamous epithelium
NA
NA

Attributes by original data submitter

Sample

sample_type
tissue
tissue
esophagus squamous epithelium
sex
male
dev_stage
adult
age
37 year
donor ID
ENCDO845WKR
lab
John Stamatoyannopoulos, UW
source
Kristin Ardlie

Sequenced DNA Library

library_strategy
DNase-Hypersensitivity
library_source
GENOMIC
library_selection
DNase
library_construction_protocol
other: https://www.encodeproject.org/documents/926174f5-d14c-4e77-bc52-5517b56daac0/@@download/attachment/Culturedcells_SOP_nuclei_DNase_crosslink_RNA_V1.pdf

Sequencing Platform

instrument_model
NextSeq 500

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads
160603046
Reads aligned (%)
97.7
Duplicates removed (%)
39.4
Number of peaks
9097 (qval < 1E-05)

hg19

Number of total reads
160603046
Reads aligned (%)
96.8
Duplicates removed (%)
40.3
Number of peaks
7596 (qval < 1E-05)

Base call quality data from DBCLS SRA