Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
GATA3

Cell type

Cell type Class
Neural
Cell type
KELLY
Primary Tissue
Brain
Tissue Diagnosis
Neuroblastoma

Attributes by original data submitter

Sample

source_name
Neuroblastoma
cell type
Kelly
chip antibody
GATA3
antibody catalog
MA1028
antibody lot
PE203382
young_id
20161215_5261

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Purified immunoprecipitated DNA were prepared for sequencing according to a modified version of the Solexa Genomic DNA protocol. Fragmented DNA was end repaired and subjected to 18 cycles of LM-PCR using oligos provided by Illumina. Amplified fragments between 150 and 300bp (representing shear fragments between 50 and 200nt in length and ~100bp of primer sequence) were isolated by agarose gel electrophoresis and purified. Lysates were clarified from sonicated nuclei and target bound fragments were isolated with antibody.

Sequencing Platform

instrument_model
NextSeq 500

hg19

Number of total reads
37012203
Reads aligned (%)
75.7
Duplicates removed (%)
17.7
Number of peaks
8909 (qval < 1E-05)

hg38

Number of total reads
37012203
Reads aligned (%)
77.2
Duplicates removed (%)
16.7
Number of peaks
8946 (qval < 1E-05)

Base call quality data from DBCLS SRA