Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
SMAD3

Cell type

Cell type Class
Others
Cell type
H69
NA
NA

Attributes by original data submitter

Sample

source_name
Biliary Epithelial Cells
cell line
H69 cholangiocyte cell line
passage
P30-32
agent
Vehicle
antibody
SMAD3

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cross linked with 1% formaldehyde for 10 mins followed by quinching with glycine and washed with TBS. ChIP-seq was performed as described by Zhong et al., 2017. ChIP-seq libraries were prepared from about 1 - 10 ng ChIP and input DNA using the ThruPLEX® DNA-seq Kit V2 (Rubicon Genomics, Ann Arbor, MI). The libraries were sequenced to 51 base pairs from both ends on an Illumina HiSeq 4000 instrument in the Mayo Clinic Center for Individualized Medicine Medical Genomics Facility.

Sequencing Platform

instrument_model
Illumina HiSeq 4000

hg19

Number of total reads
33927298
Reads aligned (%)
176.8
Duplicates removed (%)
5.5
Number of peaks
17325 (qval < 1E-05)

hg38

Number of total reads
33927298
Reads aligned (%)
178.6
Duplicates removed (%)
5.2
Number of peaks
17447 (qval < 1E-05)

Base call quality data from DBCLS SRA