Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
REST

Cell type

Cell type Class
Lung
Cell type
A549
Primary Tissue
Lung
Tissue Diagnosis
Carcinoma

Attributes by original data submitter

Sample

GEO Accession
GSM1010749
antibody antibodydescription
Mouse monoclonal. Antibody Target: NRSF
antibody targetdescription
Neuron-restrictive silencer transcription factor
antibody vendorid
(Made by Protein Expression Center: pec@caltech.edu)
antibody vendorname
David Anderson, Caltech
antibody
NRSF
cell description
epithelial cell line derived from a lung carcinoma tissue. (PMID: 175022), "This line was initiated in 1972 by D.J. Giard, et al. through explant culture of lung carcinomatous tissue from a 58-year-old caucasian male." - ATCC, newly promoted to tier 2: not in 2011 analysis
cell karyotype
cancer
cell lineage
endoderm
cell organism
human
cell sex
M
cell
A549
controlid
SL6021
datatype description
Chromatin IP Sequencing
datatype
ChipSeq
lab description
Myers - Hudson Alpha Institute for Biotechnology
lab
HudsonAlpha
labexpid
SL7110,SL8075
protocol description
Faster ChIP protocol & AMpure XP size selection for ChIP-seq (Myers)
protocol
v042211.1
replicate
1,2
softwareversion
MACS
treatment description
1 h with 0.02% Ethanol (Myers)
treatment
EtOH_0.02pct

Sequenced DNA Library

library_name
GSM1010749: HudsonAlpha_ChipSeq_A549_NRSF_EtOH_0.02pct_v042211.1
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Instrument model unknown. ("Illumina Genome Analyzer" specified by default). For more information, see http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeHaibTfbs

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
84544499
Reads aligned (%)
73.5
Duplicates removed (%)
10.9
Number of peaks
22727 (qval < 1E-05)

hg38

Number of total reads
84544499
Reads aligned (%)
74.5
Duplicates removed (%)
10.1
Number of peaks
22766 (qval < 1E-05)

Base call quality data from DBCLS SRA