SRX190070
GSM945287: UW ChipSeq HCT-116 Input

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Digestive tract
Cell type
HCT 116
Primary Tissue
Colon
Tissue Diagnosis
Carcinoma

Attributes by original data submitter

Sample

source_name
HCT-116
biomaterial_provider
ATCC
lab
UW
lab description
Stamatoyannopoulous - University of Washington
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell
HCT-116
cell organism
human
cell description
colorectal carcinoma (PMID: 7214343)
cell karyotype
cancer
cell lineage
endoderm
cell sex
M
antibody
Input
antibody description
Control signal which may be subtracted from experimental raw signal before peaks are called.
treatment
None
treatment description
No special treatment or protocol applies
control
std
control description
Standard input signal for most experiments.
controlid
wgEncodeEH000950
labexpid
DS16013
labversion
Bowtie 0.12.7
replicate
1

Sequenced DNA Library

library_name
GSM945287: UW_ChipSeq_HCT-116_Input
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads
25457596
Reads aligned (%)
98.3
Duplicates removed (%)
1.3
Number of peaks
611 (qval < 1E-05)

hg19

Number of total reads
25457596
Reads aligned (%)
97.4
Duplicates removed (%)
2.3
Number of peaks
899 (qval < 1E-05)

Base call quality data from DBCLS SRA