Curated Sample Data


Genome
hg19
Antigen Class
DNase-seq
Antigen
DNase-Seq
Cell type Class
Others
Cell type
Chorion

Cell type information


Tissue
fetal membrane
Lineage
extraembryonic mesoderm, trophectoderm
Description
chorion cells (outermost of two fetal membranes), fetal membranes were collected from women who underwent planned cesarean delivery at term, before labor and without rupture of membranes.

Attributes by Original Data Submitter


source_name
Chorion
biomaterial_provider
Dr. Amy Murtha at Duke University
datatype
DnaseSeq
datatype description
DNaseI HS Sequencing
controlid
generic_female
labversion
baseAlignCounts.pl v 1,p-value cutoff: 0.05,fseq v 1.84, iff_generic_female
replicate
1,2
cell organism
human
cell description
chorion cells (outermost of two fetal membranes), fetal membranes were collected from women who underwent planned cesarean delivery at term, before labor and without rupture of membranes.
cell karyotype
unknown
cell lineage
extraembryonic mesoderm, trophectoderm
cell sex
U
treatment
None
treatment description
No special treatment or protocol applies
controlid
generic_female
labversion
align_on_cluster_bwa.pl v 1
replicate
1
replicate description
tier 1

Metadata from Sequence Read Archive

Library Description


library_name
GSM816628: Duke_DnaseSeq_Chorion
library_strategy
DNase-Hypersensitivity
library_source
GENOMIC
library_selection
DNase

Platform Information


instrument_model
Illumina Genome Analyzer

External Database Query

Logs in read processing pipeline


Number of total reads
140720347
Reads aligned (%)
96.4
Duplicates removed (%)
41.1
Number of peaks
40160 (qval < 1E-05)

Sequence Quality Data from DBCLS SRA