Sample information curated by ChIP-Atlas

Antigen

Antigen Class
DNase-seq
Antigen
DNase-Seq

Cell type

Cell type Class
Placenta
Cell type
Trophoblasts
MeSH Description
Trophoblasts with multinuclear cytoplasm and undefined cellular structures. Syncytiotrophoblasts secrete proteolytic enzymes that erode the ENDOMETRIUM for EMBRYO IMPLANTATION. They also produce steroid, peptide, and protein hormones (PLACENTAL HORMONES).

Attributes by original data submitter

Sample

dev stage
fetal
cell type
trophoblast cell
sex
not collected
sample type
primary cell
donor ID
ENCDO070KYQ
age
18 week
lab
John Stamatoyannopoulos, UW

Sequenced DNA Library

library_strategy
DNase-Hypersensitivity
library_source
GENOMIC
library_selection
DNase
library_construction_protocol
other: https://www.encodeproject.org/documents/926174f5-d14c-4e77-bc52-5517b56daac0/@@download/attachment/Culturedcells_SOP_nuclei_DNase_crosslink_RNA_V1.pdf

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
243107820
Reads aligned (%)
83.1
Duplicates removed (%)
26.9
Number of peaks
173432 (qval < 1E-05)

hg19

Number of total reads
243107820
Reads aligned (%)
82.6
Duplicates removed (%)
27.5
Number of peaks
176959 (qval < 1E-05)

Base call quality data from DBCLS SRA