SRX2370798
GSM2400499: DNase-seq from sigmoid colon (ENCLB047DHV); 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
Colon, Sigmoid
MeSH Description
A segment of the COLON between the RECTUM and the descending colon.

Attributes by original data submitter

Sample

dev stage
adult
sex
female
sample type
tissue
donor ID
ENCDO793LXB
age
53 year
lab
John Stamatoyannopoulos, UW
tissue
sigmoid colon

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
Illumina HiSeq 2500

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads
682580058
Reads aligned (%)
39.2
Duplicates removed (%)
75.3
Number of peaks
7511 (qval < 1E-05)

hg19

Number of total reads
682580058
Reads aligned (%)
38.9
Duplicates removed (%)
76.1
Number of peaks
6291 (qval < 1E-05)

Base call quality data from DBCLS SRA