Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
CDK9

Cell type

Cell type Class
Kidney
Cell type
293
Primary Tissue
Kidney
Tissue Diagnosis
Normal

Attributes by original data submitter

Sample

source_name
HEK293
cell line
HEK293
treatment
Expressing Flag-tagged human ENL T2 mutant
antibody
CDK9

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIP-seq were performed following the protocol: Using ChIP-seq technology to generate high-resolution profiles of histone modifications. O'Geen H, Echipare L, Farnham PJ. Methods Mol Biol. 2011;791:265-86. doi: 10.1007/978-1-61779-316-5_20. ChIP-seq were performed following the protocol: Using ChIP-seq technology to generate high-resolution profiles of histone modifications. O'Geen H, Echipare L, Farnham PJ. Methods Mol Biol. 2011;791:265-86. doi: 10.1007/978-1-61779-316-5_20. For RNA-seq, RNA was isolated using the RNeasy Mini Kit (Qiagen, Gaithersburg, MD). ChIP-seq libraries were prepared using the KAPA Hyper Prep Kit (KAPA Biosystems) according to the manufacturer's protocol. DNA fragments were sequenced using single-end sequencing technology on Illumina HiSeq 3000 platform. RNA-seq samples were prepared as instructed using the TruSeq RNA Sample Preparation Kit v2 (Illumina, San Diego, CA) in accordance with the manufacturer's instructions. Two biological replicates were prepared for each condition. DNA fragments were sequenced using paired-end sequencing technology on Illumina HiSeq 3000 platform.

Sequencing Platform

instrument_model
NextSeq 500

hg19

Number of total reads
42209894
Reads aligned (%)
61.9
Duplicates removed (%)
34.6
Number of peaks
1139 (qval < 1E-05)

hg38

Number of total reads
42209894
Reads aligned (%)
64.3
Duplicates removed (%)
32.6
Number of peaks
1307 (qval < 1E-05)

Base call quality data from DBCLS SRA