SRX387776
GSM1280895: VDR ChIP-seq for unstimulated, LPS-polarized THP-1 cells; Homo sapiens; ChIP-Seq

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
VDR

Cell type

Cell type Class
Blood
Cell type
THP-1
Primary Tissue
Blood
Tissue Diagnosis
Leukemia Acute Myelogenous

Attributes by original data submitter

Sample

source_name
THP-1 cells polarized towards M1-macrophages using LPS
cell_line
THP-1
treatment
unstimulated
antibody
VDR

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
see PMID: 21846776 Standard protocol as suggested by the manufacturer for ChIP-seq libraries as utilized at the EMBL Gene Core in Heidelberg, Germany.

Sequencing Platform

instrument_model
Illumina Genome Analyzer II

Where can I get the processing logs?

Read processing pipeline log

hg19

Number of total reads
59098878
Reads aligned (%)
24.0
Duplicates removed (%)
63.0
Number of peaks
1133 (qval < 1E-05)

hg38

Number of total reads
59098878
Reads aligned (%)
25.3
Duplicates removed (%)
61.8
Number of peaks
1212 (qval < 1E-05)

Base call quality data from DBCLS SRA