SRX188815
GSM1003795: Stanford ChipSeq CH12 HCFC1 (NB100-68209) IgG-rab

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Hcfc1

Cell type

Cell type Class
Blood
Cell type
CH12
Tissue
Blood
Lineage
cellLine
Description
B-cell lymphoma (GM12878 analog)

Attributes by original data submitter

Sample

source_name
CH12
biomaterial_provider
Weissman lab
lab
Stanford-m
lab description
Snyder - Stanford University
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell
CH12
cell organism
mouse
cell description
B-cell lymphoma (GM12878 analog)
cell sex
F
antibody
HCFC1_(NB100-68209)
antibody antibodydescription
Rabbit polyclonalantibody against residue 1700 and 1750 of human host cell factor C1
antibody targetdescription
The epitope recognized by this antibody maps to a region between residue 1700 and 1750 of human host cell factor C1 (VP16-accessory protein).
antibody vendorname
NovusBio
antibody vendorid
NB100-68209
treatment
None
treatment description
No special treatment or protocol applies
control
IgG-rab
control description
Input signal from Normal Rabbit IgG ChIP-seq.
age
immortalized
age description
Immortal cells
control
IgG-rab
control description
Input signal from Normal Rabbit IgG ChIP-seq.
controlid
wgEncodeEM001939
strain
B10.H-2aH-4bp/Wts
strain description
Derived by inbreeding from selected F2 progeny of B10.A X B10.129

Sequenced DNA Library

library_name
GSM1003795: Stanford_ChipSeq_CH12_HCFC1_(NB100-68209)_IgG-rab
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

mm10

Number of total reads
58907028
Reads aligned (%)
96.1
Duplicates removed (%)
22.2
Number of peaks
32569 (qval < 1E-05)

mm9

Number of total reads
58907028
Reads aligned (%)
95.8
Duplicates removed (%)
22.2
Number of peaks
32528 (qval < 1E-05)

Base call quality data from DBCLS SRA