Sample information curated by ChIP-Atlas

Antigen

Antigen Class
DNase-seq
Antigen
DNase-Seq

Cell type

Cell type Class
Kidney
Cell type
Caki-2
Primary Tissue
Kidney
Tissue Diagnosis
Carcinoma

Attributes by original data submitter

Sample

age
69 year
donor ID
ENCDO140IFG
dev stage
adult
sample type
immortalized cell line
sex
male
cell line
Caki2
lab
John Stamatoyannopoulos, UW

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 2000

hg38

Number of total reads
63325170
Reads aligned (%)
76.1
Duplicates removed (%)
51.0
Number of peaks
58236 (qval < 1E-05)

hg19

Number of total reads
63325170
Reads aligned (%)
75.7
Duplicates removed (%)
51.7
Number of peaks
58056 (qval < 1E-05)

Base call quality data from DBCLS SRA