Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Epitope tags

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
colon
cell line
HCT116
tissue
colon
disease
colorectal carcinoma
genetic perturbation
Expressing LHX9-V5 open reading frame
chip antibody
V5 (Invitrogen #46-0705)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin immunoprecipitation was performed using SimpleChIP Enzymatic Chromatin IP Kit (Cell Signaling #9003). Monoclonal antibody against V5 tag was obtained from Invitrogen (V5 #46-0705) and used at 1:100 dilution Libraries were prepared by Molecular Biology Core Facilities at Dana Farber Cancer Institute according to Illumina's instruction

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
43389432
Reads aligned (%)
96.2
Duplicates removed (%)
5.8
Number of peaks
3424 (qval < 1E-05)

hg19

Number of total reads
43389432
Reads aligned (%)
95.5
Duplicates removed (%)
6.9
Number of peaks
3398 (qval < 1E-05)

Base call quality data from DBCLS SRA