Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Breast
Cell type
MCF-7
Primary Tissue
Breast
Site of Extraction
Pleura
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
MCF-7
biomaterial_provider
ATCC
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell description
mammary gland, adenocarcinoma. (PMID: 4357757), newly promoted to tier 2: not in 2011 analysis
treatment
None
treatment description
No special treatment or protocol applies
controlid
wgEncodeEH000589
labversion
fseq v 1.84
cell karyotype
cancer
cell lineage
ectoderm
cell sex
F
antibody
Input
antibody description
Control signal which may be subtracted from experimental raw signal before peaks are called.
controlid
MCF-7/Input
labversion
align_on_cluster_bwa.pl v 1

Sequenced DNA Library

library_name
GSM822283: UT-A_ChipSeq_MCF-7_Input
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg38

Number of total reads
30024170
Reads aligned (%)
99.0
Duplicates removed (%)
2.6
Number of peaks
949 (qval < 1E-05)

hg19

Number of total reads
30024170
Reads aligned (%)
98.2
Duplicates removed (%)
3.9
Number of peaks
1267 (qval < 1E-05)

Base call quality data from DBCLS SRA