Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
SMCHD1

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
cell line
HCT-116
cell type
Colon carcinoma cells
chip antibody
Anti-SMCHD1 Rabbit polyclonal IgG
chip antibody vendor
Sigma-Aldrich

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIP experiment was performed using formaldehyde-crosslinked chromatin from HCT116 cells (human carcinoma cell line) and antibody against SMCHD1 protein. Non-specific rabbit polyclonal IgG was used in control experiment. Libraries were prepared by Fasteris SA (Switzerland) and were sequenced on HiSeq2000.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
27247022
Reads aligned (%)
91.0
Duplicates removed (%)
5.7
Number of peaks
1265 (qval < 1E-05)

hg38

Number of total reads
27247022
Reads aligned (%)
93.3
Duplicates removed (%)
4.3
Number of peaks
1307 (qval < 1E-05)

Base call quality data from DBCLS SRA