SRX190056
GSM945273: UW ChipSeq HVMF H3K4me3

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K4me3

Cell type

Cell type Class
Placenta
Cell type
HVMF
Tissue
connective
Description
villous mesenchymal fibroblast cells

Attributes by original data submitter

Sample

source_name
HVMF
biomaterial_provider
ScienCell
lab
UW
lab description
Stamatoyannopoulous - University of Washington
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell
HVMF
cell organism
human
cell description
villous mesenchymal fibroblast cells
cell karyotype
normal
cell sex
U
antibody
H3K4me3
antibody antibodydescription
rabbit polyclonal. Antibody Target: H3K4me3
antibody targetdescription
Histone H3 (tri methyl K4). Marks promoters that are active or poised to be activated.
antibody vendorname
Millipore
antibody vendorid
07-473
treatment
None
treatment description
No special treatment or protocol applies
control
std
control description
Standard input signal for most experiments.
controlid
wgEncodeEH000964
labexpid
DS16156
labversion
Bowtie 0.12.7
replicate
1

Sequenced DNA Library

library_name
GSM945273: UW_ChipSeq_HVMF_H3K4me3
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
56712953
Reads aligned (%)
97.4
Duplicates removed (%)
25.5
Number of peaks
36363 (qval < 1E-05)

hg19

Number of total reads
56712953
Reads aligned (%)
97.1
Duplicates removed (%)
26.1
Number of peaks
37718 (qval < 1E-05)

Base call quality data from DBCLS SRA