Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
NFIC

Cell type

Cell type Class
Blood
Cell type
GM12878
Tissue
blood
Lineage
mesoderm
Description
B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus

Attributes by original data submitter

Sample

GEO Accession
GSM1010881
antibody antibodydescription
Mouse monoclonal IgG, raised against a recombinant protein corresponding to an internal region of NF-1 of human origin. Antibody Target: NFIC
antibody targetdescription
Recognizes and binds the palindromic sequence 5'-TTGGCNNNNNGCCAA-3' present in viral and cellular promoters and in the origin of replication of adenovirus type 2. These proteins are individually capable of activating transcription and replication.
antibody vendorid
sc-81335
antibody vendorname
Santa Cruz Biotechnology
antibody
NFIC_(SC-81335)
cell description
B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus
cell karyotype
normal
cell lineage
mesoderm
cell organism
human
cell sex
F
cell
GM12878
controlid
SL6022
datatype description
Chromatin IP Sequencing
datatype
ChipSeq
lab description
Myers - Hudson Alpha Institute for Biotechnology
lab
HudsonAlpha
labexpid
SL8083,SL8392
protocol description
Faster ChIP protocol & AMpure XP size selection for ChIP-seq (Myers)
protocol
v042211.1
replicate
1,2
softwareversion
MACS
treatment description
No special treatment or protocol applies
treatment
None

Sequenced DNA Library

library_name
GSM1010881: HudsonAlpha_ChipSeq_GM12878_NFIC_(SC-81335)_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

hg19

Number of total reads
67755139
Reads aligned (%)
65.4
Duplicates removed (%)
18.9
Number of peaks
39030 (qval < 1E-05)

hg38

Number of total reads
67755139
Reads aligned (%)
66.6
Duplicates removed (%)
19.8
Number of peaks
38038 (qval < 1E-05)

Base call quality data from DBCLS SRA