SRX190035
GSM945252: UW ChipSeq NB4 Input

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Blood
Cell type
NB-4
Primary Tissue
Blood
Site of Extraction
Bone Marrow
Tissue Diagnosis
Leukemia

Attributes by original data submitter

Sample

source_name
NB4
biomaterial_provider
Refer to protocol documents for differing sources, UW: DSMZ (Deutsche Sammlung von Mikroorganismen und Zellkulturen) ACC-207 http://www.dsmz.de/ or Yale (Stanford): National Cell Culture Center http://www.nccc.com/
lab
UW
lab description
Stamatoyannopoulous - University of Washington
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell
NB4
cell organism
human
cell description
acute promyelocytic leukemia cell line. (PMID: 1995093)
cell karyotype
cancer
cell lineage
mesoderm
cell sex
U
antibody
Input
antibody description
Control signal which may be subtracted from experimental raw signal before peaks are called.
treatment
None
treatment description
No special treatment or protocol applies
control
std
control description
Standard input signal for most experiments.
controlid
wgEncodeEH000970
labexpid
DS16344
labversion
Bowtie 0.12.7
replicate
1

Sequenced DNA Library

library_name
GSM945252: UW_ChipSeq_NB4_Input
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads
32176838
Reads aligned (%)
98.8
Duplicates removed (%)
1.7
Number of peaks
1061 (qval < 1E-05)

hg19

Number of total reads
32176838
Reads aligned (%)
97.8
Duplicates removed (%)
3.1
Number of peaks
1148 (qval < 1E-05)

Base call quality data from DBCLS SRA