Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
TERF2

Cell type

Cell type Class
Muscle
Cell type
Muscle, Smooth
MeSH Description
Unstriated and unstriped muscle, one of the muscles of the internal organs, blood vessels, hair follicles, etc. Contractile elements are elongated, usually spindle-shaped cells with centrally located nuclei. Smooth muscle fibers are bound together into sheets or bundles by reticular fibers and frequently elastic nets are also abundant. (From Stedman, 25th ed)

Attributes by original data submitter

Sample

source_name
iciHHV6 patient cells
infection
iciHHV6 infected
cell type
smooth muscle cells
chip antibody
TRF2 (GeneTex, cat#13579)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIP-seq: Cells were fixed with 1% formaldehyde for 10 minutes at room temperature and then quenched with 0.125M glycine for 5 minutes, prior to several washes with ice-cold PBS. Cells were lysed and IPs were performed with the indicated antibody at a ratio of 4ug antibody to 20ug chromatin (for histone modifications) and 10ug antibody to 150ug chromatin (for TRF1/2). ChIP-seq libraries were prepared with the NEB Ultra II Library Prep Kit following the manufacturer´s protocol.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
44630337
Reads aligned (%)
6.4
Duplicates removed (%)
92.4
Number of peaks
315 (qval < 1E-05)

hg38

Number of total reads
44630337
Reads aligned (%)
7.9
Duplicates removed (%)
90.7
Number of peaks
341 (qval < 1E-05)

Base call quality data from DBCLS SRA