Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
SMCHD1

Cell type

Cell type Class
Neural
Cell type
SH-SY5Y
Primary Tissue
Brain
Tissue Diagnosis
Neuroblastoma

Attributes by original data submitter

Sample

source_name
SH-SY5Y neuroblastoma
cell line
SH-SY5Y
cell line source tissue
bone marrow
cell type
neurobalstoma cells
passage
15-20
chip antibody
anti-SmcHD1 antiserum

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
The cells were fixed using 1% formaldehyde. Upon cell cysis, the chromatin was sheared by sonication and SmcHD1 bound chromatin was isolated using anti-SmcHD1 antiserum. The DNA libraries were prepared according the Illumina's suggested protocol.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
93844920
Reads aligned (%)
178.6
Duplicates removed (%)
6.0
Number of peaks
1450 (qval < 1E-05)

hg38

Number of total reads
93844920
Reads aligned (%)
181.1
Duplicates removed (%)
5.5
Number of peaks
2666 (qval < 1E-05)

Base call quality data from DBCLS SRA