Antigen

Antigen Class

Input control

Antigen

Input control

Cell type

Cell type Class

Lung

Cell type

A549

Primary Tissue

Lung

Tissue Diagnosis

Carcinoma

Sample

GEO Accession

GSM1010795

antibody

RevXlinkChromatin

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

SL3978

datatype description

Chromatin IP Sequencing

datatype

ChipSeq

lab description

Myers - Hudson Alpha Institute for Biotechnology

lab

HudsonAlpha

labexpid

SL3978

protocol description

2x10^7 cells, fragmentation by bioruptor, one 15-cycle round of PCR (Myers)

protocol

v041610.1

replicate

1

treatment description

1 h with 0.02% Ethanol (Myers)

treatment

EtOH_0.02pct

Sequenced DNA Library

library_name

GSM1010795: HudsonAlpha_ChipSeq_A549_RevXlinkChromatin_EtOH_0.02pct_v041610.1

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

hg38

Number of total reads

28669559

Reads aligned (%)

94.0

Duplicates removed (%)

3.2

Number of peaks

556 (qval < 1E-05)

hg19

Number of total reads

28669559

Reads aligned (%)

93.4

Duplicates removed (%)

4.1

Number of peaks

741 (qval < 1E-05)