Sample information curated by ChIP-Atlas

Antigen

Antigen Class
ATAC-Seq
Antigen
ATAC-Seq

Cell type

Cell type Class
Blood
Cell type
Blood Cells
MeSH Description
The cells found in the body fluid circulating throughout the CARDIOVASCULAR SYSTEM.

Attributes by original data submitter

Sample

source_name
5month_Blood
strain
C57BL/6J
age
5 month
gender
male
tissue
Blood
treatment
BPA (Bisphenol A) 10 UG/KGBW/DAY

Sequenced DNA Library

library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
Sample collection was performed by Marisa Bartolomei lab at University of Pennsylvania. 5 month mice were CO2 euthanized. Liver and blood cells from individual mouse were isolated for subsequent DNA and RNA extractions according to the standard operation procedure described by the TaRGET II consortium. Please refer to TaRGET II data portal (https://data.targetepigenomics.org) for details. ATAC-seq and mRNA-seq experiments were performed by Marisa Bartolomei lab at University of Pennsylvania. mRNA and nuclei from 5 month mice liver and blood were isolated for subsequent ATAC-seq and mRNA-seq library preparations according to the operation procedure described by the TaRGET II consortium. Please refer to TaRGET II data portal (https://data.targetepigenomics.org) for details.

Sequencing Platform

instrument_model
NextSeq 500

mm10

Number of total reads
22595826
Reads aligned (%)
95.8
Duplicates removed (%)
8.0
Number of peaks
14460 (qval < 1E-05)

mm9

Number of total reads
22595826
Reads aligned (%)
95.7
Duplicates removed (%)
8.0
Number of peaks
14476 (qval < 1E-05)

Base call quality data from DBCLS SRA