Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
TRPS1

Cell type

Cell type Class
Breast
Cell type
T-47D
Primary Tissue
Breast
Tissue Diagnosis
Adenocarcinoma Ductal

Attributes by original data submitter

Sample

source_name
TRPS1_ChIPseq
cell line
T47D
antibody
TRPS1 ChIP antibody

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For the chip-seq: Libraries were prepared according to Illumina's instructions. Briefly, cells were crosslinked with 1% paraformaldehyde for 10 min at room temperature, quenched with glycine, and fixed chromatin was sonicated and immunoprecipitated with specific antibodies.RNA –seq: The total RNA was extracted with the RNeasy kit (Promega). For the chip-seq:Libraries were prepared with Illumina's ChIP-Seq sample prep kit for next-generation sequencing.For the RNA –seq: Followed by library preparation and next-generation sequencing.

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
31331238
Reads aligned (%)
90.7
Duplicates removed (%)
3.4
Number of peaks
1184 (qval < 1E-05)

hg38

Number of total reads
31331238
Reads aligned (%)
92.4
Duplicates removed (%)
2.4
Number of peaks
1057 (qval < 1E-05)

Base call quality data from DBCLS SRA