SRX100536
GSM803491: HudsonAlpha ChipSeq U87 RevXlinkChromatin v041610.1

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Neural
Cell type
U-87 MG
Primary Tissue
Brain
Tissue Diagnosis
Glioblastoma

Attributes by original data submitter

Sample

source_name
U87
biomaterial_provider
ATCC
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
controlid
SL2338,SL3777
labexpid
SL2338,SL3777
cell
U87
cell organism
human
cell description
glioblastoma, astrocytoma, (PMID: 4332744)
cell karyotype
cancer
cell lineage
ectoderm
cell sex
M
antibody
RevXlinkChromatin
treatment
None
treatment description
No special treatment or protocol applies
protocol
v041610.1
protocol description
2x10^7 cells, fragmentation by bioruptor, one 15-cycle round of PCR (Myers)
controlid
SL2338,SL3777
labexpid
SL2338,SL3777
replicate
1,2

Sequenced DNA Library

library_name
GSM803491: HudsonAlpha_ChipSeq_U87_RevXlinkChromatin_v041610.1
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads
161044716
Reads aligned (%)
89.8
Duplicates removed (%)
50.5
Number of peaks
1334 (qval < 1E-05)

hg19

Number of total reads
161044716
Reads aligned (%)
89.3
Duplicates removed (%)
51.6
Number of peaks
1402 (qval < 1E-05)

Base call quality data from DBCLS SRA