Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
UBE3A

Cell type

Cell type Class
Pluripotent stem cell
Cell type
hESC derived neural cells
NA
NA

Attributes by original data submitter

Sample

source_name
Neurons
cell type
H9 hESC-derived neurons
weeks of differentiation
10 weeks
genotype
wildtype
antibody
anti-UBE3A
antibody catalog number and manufacturer
A300-351A (Bethyl)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
hESCs, NPCs, and neurons were processed for ChIP-seq as previously described (Cotney & Noonan (2015), Cold Spring Harb Protoc 2015(4): 419 Libraries were prepared from ChIPed DNA using the Takara ThruPLEX DNA-seq library preparation kit according to manufacturer's instructions. Libraries were quantified with the NEBNext Library Quant Kit for Illumina

Sequencing Platform

instrument_model
NextSeq 500

hg19

Number of total reads
32873668
Reads aligned (%)
64.5
Duplicates removed (%)
33.4
Number of peaks
982 (qval < 1E-05)

hg38

Number of total reads
32873668
Reads aligned (%)
66.6
Duplicates removed (%)
31.7
Number of peaks
984 (qval < 1E-05)

Base call quality data from DBCLS SRA