Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Neural
Cell type
D54
NA
NA

Attributes by original data submitter

Sample

source_name
Gliobla
biomaterial_provider
Dr. Darrell Bigner at Duke University Medical Center
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
treatment
None
treatment description
No special treatment or protocol applies
controlid
wgEncodeEH001129
labversion
fseq v 1.84
cell description
glioblastoma, these cells (aka H54 and D54) come from a surgical resection from a patient with glioblastoma multiforme (WHO Grade IV). D54 is a commonly studied glioblastoma cell line (Bao et al., 2006) that has been thoroughly described by S Bigner (1981). (PMID: 7252524)
cell karyotype
cancer
cell lineage
ectoderm
cell sex
U
antibody
Input
antibody description
Control signal which may be subtracted from experimental raw signal before peaks are called.
controlid
Gliobla/Input
labversion
align_on_cluster_bwa.pl v 1

Sequenced DNA Library

library_name
GSM822268: UT-A_ChipSeq_Gliobla_Input
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg38

Number of total reads
52963405
Reads aligned (%)
99.2
Duplicates removed (%)
8.8
Number of peaks
1819 (qval < 1E-05)

hg19

Number of total reads
52963405
Reads aligned (%)
98.6
Duplicates removed (%)
10.1
Number of peaks
1723 (qval < 1E-05)

Base call quality data from DBCLS SRA