SRX190329
GSM1010873: HudsonAlpha ChipSeq H1-neurons RevXlinkChromatin v042211.1

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Pluripotent stem cell
Cell type
hESC derived neural cells
NA
NA

Attributes by original data submitter

Sample

GEO Accession
GSM1010873
antibody
RevXlinkChromatin
cell description
neurons derived from H1 embryonic stem cells, newly promoted to tier 2: not in 2011 analysis
cell karyotype
normal
cell lineage
ectoderm
cell organism
human
cell sex
M
cell
H1-neurons
controlid
SL13320,SL16755
datatype description
Chromatin IP Sequencing
datatype
ChipSeq
lab description
Myers - Hudson Alpha Institute for Biotechnology
lab
HudsonAlpha
labexpid
SL13320,SL16755
protocol description
Faster ChIP protocol & AMpure XP size selection for ChIP-seq (Myers)
protocol
v042211.1
replicate
1,2
treatment description
No special treatment or protocol applies
treatment
None

Sequenced DNA Library

library_name
GSM1010873: HudsonAlpha_ChipSeq_H1-neurons_RevXlinkChromatin_v042211.1
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Instrument model unknown. ("Illumina Genome Analyzer" specified by default). For more information, see http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeHaibTfbs

Sequencing Platform

instrument_model
Illumina Genome Analyzer

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads
73756556
Reads aligned (%)
89.6
Duplicates removed (%)
3.0
Number of peaks
2032 (qval < 1E-05)

hg19

Number of total reads
73756556
Reads aligned (%)
89.1
Duplicates removed (%)
3.8
Number of peaks
1775 (qval < 1E-05)

Base call quality data from DBCLS SRA