Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
USF1

Cell type

Cell type Class
Neural
Cell type
SK-N-SH
Primary Tissue
Brain
Tissue Diagnosis
Neuroblastoma

Attributes by original data submitter

Sample

source_name
SK-N-SH_RA
biomaterial_provider
ATCC
datatype
ChipSeq
datatype description
Chromatin IP Sequencing
cell description
neuroblastoma cell line, treatment: differentiated with retinoic acid, (Biedler, et al. Morphology and Growth, Tumorigenicity, and Cytogenetics of Human Neuroblastoma Cells in Continuous Culture. Cancer Research 33, 2643-2652, November 1973.)
antibody antibodydescription
Rabbit polyclonal IgG, epitope corresponding to a.a. 75-160 mapping within internal region of USF1 of human origin. Antibody Target: USF1
antibody targetdescription
This gene encodes a member of the basic helix-loop-helix leucine zipper family, and can function as a cellular transcription factor. The encoded protein can activate transcription through pyrimidine-rich initiator (Inr) elements and E-box motifs. This gene has been linked to familial combined hyperlipidemia (FCHL). Two transcript variants encoding distinct isoforms have been identified for this gene. (provided by RefSeq).
antibody vendorname
Santa Cruz Biotechnology
antibody vendorid
sc-8983
controlid
SL2905
labexpid
SL2919,SL2911
replicate
1,2
softwareversion
MACS
antibody antibodydescription
Rabbit polyclonal IgG, epitope corresponding to a.a. 75-160 mapping within internal region of USF1 of human origin.
antibody targetdescription
This gene encodes a member of the basic helix-loop-helix leucine zipper family, and can function as a cellular transcription factor. The encoded protein can activate transcription through pyrimidine-rich initiator (Inr) elements and E-box motifs. This gene has been linked to familial combined hyperlipidemia (FCHL). Two transcript variants encoding distinct isoforms have been identified for this gene. (provided by RefSeq).
antibody vendorname
Santa Cruz Biotech
antibody vendorid
sc-8983
treatment
None
treatment description
No special treatment or protocol applies
protocol
v041610.2
protocol description
2x10^7 cells, fragmentation by probe-in sonicator, one 15-cycle round of PCR (Myers)
controlid
SL2905
labexpid
SL2911
replicate
1
replicate description
tier 1

Sequenced DNA Library

library_name
GSM803472: HudsonAlpha_ChipSeq_SK-N-SH_RA_USF1_(SC-8983)_v041610.2
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
40002088
Reads aligned (%)
55.7
Duplicates removed (%)
37.7
Number of peaks
28989 (qval < 1E-05)

hg38

Number of total reads
40002088
Reads aligned (%)
57.1
Duplicates removed (%)
36.5
Number of peaks
28951 (qval < 1E-05)

Base call quality data from DBCLS SRA