SRX100417
GSM803372: HudsonAlpha ChipSeq U87 NRSF PCR2x

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
REST

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
antibody antibodydescription
Mouse monoclonal. Antibody Target: NRSF
antibody targetdescription
Neuron-restrictive silencer transcription factor
antibody vendorname
Dr. David Anderson at Caltech
antibody vendorid
(Made by Protein Expression Center: pec@caltech.edu)
controlid
SL103,SL414
labexpid
SL88,SL413
softwareversion
MACS
cell sex
M
antibody
NRSF
antibody antibodydescription
Mouse monoclonal. Antibody Target: NRSF
antibody targetdescription
Neuron-restrictive silencer transcription factor
antibody vendorname
David Anderson, Caltech
antibody vendorid
(Made by Protein Expression Center: pec@caltech.edu)
treatment
None
treatment description
No special treatment or protocol applies
protocol
PCR2x
protocol description
a 25-cycle round of PCR and an additional 15-cycle round of PCR after gel size selection (Myers)
controlid
SL103,SL414
labexpid
SL88,SL413
replicate
1,2
softwareversion
MACS

Sequenced DNA Library

library_name
GSM803372: HudsonAlpha_ChipSeq_U87_NRSF_PCR2x
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
178414972
Reads aligned (%)
36.7
Duplicates removed (%)
48.3
Number of peaks
24714 (qval < 1E-05)

hg19

Number of total reads
178414972
Reads aligned (%)
36.5
Duplicates removed (%)
49.0
Number of peaks
24406 (qval < 1E-05)

Base call quality data from DBCLS SRA