SRX2370628
GSM2400312: DNase-seq from G401 (ENCLB098YSI); Homo sapiens; DNase-Hypersensitivity

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
DNase-seq
Antigen
DNase-Seq

Cell type

Cell type Class
Others
Cell type
MRT G401
Tissue
kidney
Lineage
missing
Description
Malignant renal rhabdoid tumor line

Attributes by original data submitter

Sample

age
3 month
donor ID
ENCDO572LRN
dev stage
child
sample type
immortalized cell line
sex
male
cell line
G401
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

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads
311048608
Reads aligned (%)
22.8
Duplicates removed (%)
54.7
Number of peaks
46242 (qval < 1E-05)

hg19

Number of total reads
311048608
Reads aligned (%)
22.6
Duplicates removed (%)
55.8
Number of peaks
46038 (qval < 1E-05)

Base call quality data from DBCLS SRA