Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
FOXA2

Cell type

Cell type Class
Uterus
Cell type
Endometrium
MeSH Description
The mucous membrane lining of the uterine cavity that is hormonally responsive during the MENSTRUAL CYCLE and PREGNANCY. The endometrium undergoes cyclic changes that characterize MENSTRUATION. After successful FERTILIZATION, it serves to sustain the developing embryo.

Attributes by original data submitter

Sample

source_name
endometrium
phase
proliferative
antibody
FOXA2

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Endometrial specimens were collected from normal volunteers using a Pipelle™ suction device (CooperSurgical) in an outpatient clinic setting. Samples were apportioned to flash freezing in liquid nitrogen and formalin for fixation and later paraffin embedding. Mid-secretory (MS) phase samples were collected 6-10 days after urinary detection of the LH surge and proliferative (P) phase samples were collected between 8-12 days after onset of menses. Illumina sequencing libraries were prepared from the ChIP and Input DNAs by the standard consecutive enzymatic steps of end-polishing, dA-addition, and adaptor ligation. After a final PCR amplification step, the resulting DNA libraries were quantified and sequenced on Illumina's NextSeq 500

Sequencing Platform

instrument_model
NextSeq 500

hg19

Number of total reads
42398020
Reads aligned (%)
87.1
Duplicates removed (%)
10.6
Number of peaks
3816 (qval < 1E-05)

hg38

Number of total reads
42398020
Reads aligned (%)
88.4
Duplicates removed (%)
9.8
Number of peaks
4555 (qval < 1E-05)

Base call quality data from DBCLS SRA