title: Stanford_ChipSeq_IMR90_Rad21_IgG-rab

tag: lab

value: Stanford

tag: lab description

value: Snyder - Stanford University

tag: datatype

value: ChipSeq

value: fetal lung fibroblasts, newly promoted to tier 2:not in 2011 analysis

value: normal

value: F

tag: treatment

value: Rabbit polyclonal. Antibody Target:RAD21

value: Synthetic peptide (Human) conjugated to KLH - which represents a portion of human Rad21 encoded within exon 14

value: Abcam

tag: antibody vendorid

value: IgG-rab

value: Input signal from Normal Rabbit IgG ChIP-seq.

tag: replicate


title: Stanford_ChipSeq_A549_Input_IgG-rab

status: Public on May 22 2012

type: SRA

city: Stanford

first: ENCODE

last: DCC

state: CA

address: 300 Pasteur Dr

country: USA

institute: ENCODE DCC

library_source: genomic

molecule: genomic DNA

organism: Homo sapiens

extract_protocol: Instrument model unknown. ("Illumina Genome Analyzer" specified by default). For more information, see http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg19&g=wgEncodeSydhTfbs

tag: datatype description

value: Chromatin IP Sequencing

tag: cell

tag: cell organism

value: human

tag: cell description

value: epithelial cell line derived from a lung carcinoma tissue. (PMID:175022), "This line was initiated in 1972 by D.J. Giard, et al. through explant culture of lung carcinomatous tissue from a 58-year-old caucasian male." - ATCC, newly promoted to tier 2:not in 2011 analysis

tag: cell karyotype

value: cancer

tag: cell lineage

value: endoderm

tag: cell sex

value: M

tag: treatment description

value: No special treatment or protocol applies

tag: antibody

value: Input

tag: antibody description

value: Control signal which may be subtracted from experimental raw signal before peaks are called.

tag: control

tag: control description

tag: controlid


title: Stanford_ChipSeq_HepG2_forskolin_CEBPB_std

treatment_protocol: forskolin

tag: lab

value: Stanford

tag: lab description

value: Snyder - Stanford University

tag: datatype

value: ChipSeq

value: hepatocellular carcinoma

value: forskolin

value: low-glucose DMEM with 0.5% BSA supplemented with 1uM forskolin and 1mM pyruvate for 6h. (Snyder)

value: CEBPB

tag: antibody antibodydescription

value: Rabbit polyclonal IgG. Antibody Target:CEBPB

tag: antibody targetdescription

value: epitope mapping at the C-terminus of C/EBP-beta of rat origin

tag: antibody vendorname

value: Santa Cruz Biotech

value: std

value: Standard input signal for most experiments.

tag: labversion

value: Illumina 2.0, low confidence sequences excluded.  Data paired with HepG2_Forskolin_Control.


title: USC_ChipSeq_HeLa-S3_TCF7L2_C9B9_(2565)_UCDavis

value: USC

value: Farnham - University of Southern California

tag: datatype description

value: Chromatin IP Sequencing

tag: cell

tag: cell organism

value: human

tag: cell description

value: cervical carcinoma

value: cancer

value: ectoderm

value: F

tag: treatment

value: Rabbit monoclonal antibody is produced by immunizing animals with a synthetic peptide corresponding to residues surrounding Glu81 of human TCF7L2. Antibody Target:TCF7L2

value: TCF7L2 (formerly known as TCF4) is a member of the high mobility group (HMG) DNA binding protein family of transcription factors which consists of the following:Lymphoid enhancer factor 1 (LEF1), T Cell Factor 1 (TCF1), TCF3 and TCF4. Note:there is an official TCF-4 http://www.genecards.org/cgi-bin/carddisp.pl?gene=TCF4&search=TCF4

value: Cell Signaling Technology

tag: antibody vendorid

value: UCDavis

value: Input library was prepared at UC Davis.

tag: replicate


title: Stanford_ChipSeq_HepG2_forskolin_HNF4A_std

value: Stanford

value: Snyder - Stanford University

value: ChipSeq

value: hepatocellular carcinoma

tag: cell karyotype

tag: cell lineage

value: endoderm

tag: cell sex

value: M

value: forskolin

tag: treatment description

value: low-glucose DMEM with 0.5% BSA supplemented with 1uM forskolin and 1mM pyruvate for 6h. (Snyder)

tag: antibody

value: Goat polyclonal IgG. Antibody Target:HNF4A

value: epitope mapping at the C-terminus of Rab 11 of human origin

value: Santa Cruz Biotech

tag: control


title: Stanford_ChipSeq_HepG2_forskolin_ERRA_std

tag: lab

tag: lab description

tag: datatype

value: Chromatin IP Sequencing

value: human

value: cancer

value: ERRA

tag: antibody antibodydescription

value: Rabbit polyclonal IgG, epitope mapping at the C-terminus of Ets-1 of human origin. Antibody Target:ERRA

value: epitope corresponding to amino acids 81-160 mapping near the N-terminus of ERRalpha of human origin

value: std

tag: control description

value: Standard input signal for most experiments.

tag: controlid

value: Illumina 2.0, low confidence sequences excluded.  Data paired with HepG2_Forskolin_Control.


title: Stanford_ChipSeq_HepG2_forskolin_GRp20_std

value: Stanford

value: Snyder - Stanford University

value: ChipSeq

tag: datatype description

tag: cell

tag: cell organism

value: hepatocellular carcinoma

value: Rabbit polyclonal IgG. Antibody Target:GRp20

tag: antibody targetdescription

value: epitope mapping at the C-terminus of GR alpha of human origin

tag: antibody vendorname

tag: labversion


title: Stanford_ChipSeq_K562_Input_IgG-rab

tag: cell description

value: leukemia, "The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises." - ATCC

tag: cell karyotype

tag: cell lineage

value: mesoderm

value: F

tag: treatment

value: No special treatment or protocol applies

value: Input

tag: antibody description

value: Control signal which may be subtracted from experimental raw signal before peaks are called.

value: IgG-rab

value: Input signal from Normal Rabbit IgG ChIP-seq.


title: Stanford_ChipSeq_HeLa-S3_BAF155_IgG-mus

tag: lab

value: Chromatin IP Sequencing

value: human

value: cervical carcinoma

value: cancer

value: ectoderm

tag: cell sex

tag: treatment description

tag: antibody

value: BAF155 (H-76) is a rabbit polyclonal antibody raised against amino acids 998-1073 of BAF155 of human origin. Antibody Target:BAF155

value: BAF155 (SMARCC1, Brg1-Associated Factor, 155 kD) is a ubiquitous component of the SWI/SNF chromatin-remodeling complex.

value: Santa Cruz Biotech

tag: antibody vendorid

tag: control

value: IgG-mus

value: Input signal from Normal Mouse IgG ChIP-seq.

value: remapped from hg18, Data paired with IgG_Control.

tag: replicate


title: USC_ChipSeq_PANC-1_Input_UCDavis (superseded by GSE86663)

description:
****************************
GSM935617 record metadata submitted on May 22 2012 may be obsolete, up to date experimental metadata was resubmitted by ENCODE DCC and is available at GSE86663
****************************

value: immortalized cell line

value: USC

tag: lab description

value: Farnham - University of Southern California

tag: datatype

value: ChipSeq

tag: datatype description

tag: line

value: pancreatic carcinoma, (PMID:1140870) PANC-1 was established from a pancreatic carcinoma, which was extracted via pancreatico-duodenectomy specimen from a 56-year-old Caucasian individual. Malignancy of this cell line was verified via in vitro and in vivo assays.

value: endoderm

value: M

value: UCDavis

tag: control description

value: Input library was prepared at UC Davis.

tag: controlid


title: Stanford_ChipSeq_K562_BHLHE40_(NB100-1800)_IgG-rab

value: Stanford

value: Snyder - Stanford University

value: Chromatin IP Sequencing

tag: cell

tag: cell organism

value: human

tag: cell description

value: leukemia, "The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises." - ATCC

tag: cell karyotype

value: cancer

value: mesoderm

value: F

value: No special treatment or protocol applies

tag: antibody antibodydescription

value: Rabbit polyclonal, maps to a region between residues 350 and the C-terminus (residue 412). Antibody Target:BHLHE40

tag: antibody targetdescription

value: This gene encodes a basic helix-loop-helix protein expressed in various tissues. Expression in the chondrocytes is responsive to the addition of Bt2cAMP. The encoded protein is believed to be involved in the control of cell differentiation.

tag: antibody vendorname

value: Novus

value: IgG-rab

value: Input signal from Normal Rabbit IgG ChIP-seq.


title: Stanford_ChipSeq_HeLa-S3_SPT20_std

tag: lab

value: ChipSeq

value: cervical carcinoma

tag: cell lineage

value: ectoderm

tag: cell sex

tag: treatment

tag: treatment description

tag: antibody

value: Rabbit polyclonal anti-SPT20 antibody (3006), Immunogen: C-terminal region of mSPT20 (330-531 aa) is cloned in pET28b and over expressed in E. Coli. Protein was purified on Ni-NTA exchange column. Sequence:mSPT20 (330-531 amino acids). Antibody Target:SPT20

value: Also known as FAM48A or P38IP.   It is a component of SAGA complex.  Required for MAP kinase p38 (MAPK11, MAPK12, MAPK13 and/or MAPK14) activation during gastrulation. Required for down-regulation of E-cadherin during gastrulation by regulating E-cadherin protein level downstream from NCK-interacting kinase (NIK) and independently of the regulation of transcription by Fgf signaling and Snail.

value: Laszlo Tora

value: missing

value: std

value: Standard input signal for most experiments.


title: Stanford_ChipSeq_GM12878_STAT1_std

value: Stanford

tag: lab description

value: Snyder - Stanford University

tag: datatype

tag: datatype description

value: Chromatin IP Sequencing

value: human

value: B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus

value: normal

value: mesoderm

value: rabbit polyclonal to STAT1 (alpha) p-91 (C-24). Antibody Target:STAT1

value: transcription factor, activated by interferon signalling

value: Santa Cruz Biotech

tag: antibody vendorid

tag: control

tag: replicate


title: Stanford_ChipSeq_GM12878_CTCF_(SC-15914)_std

value: ChipSeq

tag: cell

tag: cell organism

tag: cell description

value: F

value: No special treatment or protocol applies

value: Goat polyclonal, epitope mapping near the C-terminus of CTCF of human origin. Antibody Target:CTCF

value: Transcriptional regulator with 11 highly conserved zinc finger domains. Depending on context, can bind a histone acetyltransferase (HAT)-containing complex and function as transcriptional activator or bind a histone deacetylase (HDAC)-containing complex and function as transcriptional repressor. Involved in transcriptional regulation by binding to chromatin insulators and preventing interaction between promoter and nearby enhancers and silencers. Preferentially interacts with unmethylated DNA, preventing spreading of CpG methylation. Can dimerize, mediating long-range chromatin looping. When bound to chromatin, provides an anchor point for nucleosomes positioning. Involved in sister chromatid cohesion. Associates with both centromeres and chromosomal arms during metaphase and required for cohesin localization to CTCF sites.

tag: control description

tag: controlid


title: Stanford_ChipSeq_GM12878_Znf143_(16618-1-AP)_std

tag: lab

tag: cell karyotype

tag: antibody antibodydescription

value: Rabbit polyclonal against human ZNF143 (amino acids 283-626)-6his fusion protein. Antibody Target:Znf143

tag: antibody targetdescription

value: Transcriptional activator. Activates the gene for selenocysteine tRNA (tRNAsec). Binds to the SPH motif of small nuclear RNA (snRNA) gene promoters. Participates to efficient U6 RNA polymerase III transcription via its interaction with CHD8

tag: antibody vendorname

value: Proteintech

value: std


title: Stanford_ChipSeq_H1-hESC_c-Jun_IgG-rab

value: Stanford

value: Snyder - Stanford University

value: Chromatin IP Sequencing

value: embryonic stem cells

tag: cell lineage

value: inner cell mass

tag: cell sex

value: M

tag: treatment

tag: treatment description

tag: antibody

value: c-Jun

value: Rabbit polyclonal to amino acids 1-79 mapping at the N-terminus of c-Jun p39 of human origin. Antibody Target:c-Jun

value: Heterodimer of Fos and Jun constitute transcription factor AP1.  Proto-oncogene c-Jun is a leucine-zipper.

value: IgG-rab

value: Input signal from Normal Rabbit IgG ChIP-seq.


title: Stanford_ChipSeq_HepG2_MafK_(SC-477)_IgG-rab

tag: lab description

tag: datatype

value: ChipSeq

tag: datatype description

value: human

value: hepatocellular carcinoma

value: cancer

value: endoderm

value: No special treatment or protocol applies

value: Rabbit polyclonal raised against epitope mapping at the C-terminus of NF-E2 p18 of mouse origin; recommended for detection of NF-E2 p18 (MafK) of mouse, rat and human origin. Antibody Target:MafK

value: NFE2 DNA-binding activity consists of a heterodimer containing an 18-kD Maf protein (MafF, MafG, or MafK) and p45. Both subunits are members of the activator protein-1 superfamily of basic leucine zipper (bZIP)proteins. Since they lack a putative transactivation domain, small Mafs behave as transcriptional repressors when they dimerize among themselves. They serve as transcriptional activators by dimerizing with other (usually larger) bZip proteins and recruiting them to specific DNA-binding sites.

value: Santa Cruz Biotech

tag: antibody vendorid

tag: control


title: Stanford_ChipSeq_HepG2_BRCA1_(A300-000A)_IgG-rab

value: Stanford

value: Snyder - Stanford University

value: Chromatin IP Sequencing

tag: cell

tag: cell organism

tag: cell description

value: Rabbit polyclonal recognizing a region between residue 1800 and the C-terminus (residue 1863) of human Breast Cancer Gene 1. Antibody Target:BRCA1

value: Nuclear phosphoprotein that plays a role in maintaining genomic stability, and acts as a tumor suppressor. Associates with RNA polymerase II, and through the C-terminal domain, also interacts with histone deacetylase complexes. Plays a role in transcription, DNA repair of double-stranded breaks, and recombination. Mutations in this gene are responsible for approximately 40% of inherited breast cancers and more than 80% of inherited breast and ovarian cancers.

value: Bethyl Labratories

tag: control description

tag: replicate


title: Stanford_ChipSeq_HepG2_forskolin_HSF1_std

tag: lab

tag: cell karyotype

value: M

value: forskolin

value: low-glucose DMEM with 0.5% BSA supplemented with 1uM forskolin and 1mM pyruvate for 6h. (Snyder)

tag: antibody antibodydescription

value: Rabbit polyclonal IgG. Antibody Target:HSF1

tag: antibody targetdescription

value: epitope corresponding to amino acids 219-529 of heat shock transcription factor 1 (HSF1) of human origin

value: std

value: Standard input signal for most experiments.

tag: controlid

tag: labversion

value: Illumina 2.0, low confidence sequences excluded.  Data paired with HepG2_Forskolin_Control.


title: Stanford_ChipSeq_GM12878_Pol2(phosphoS2)_IgG-mus

value: ChipSeq

value: human

value: B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus

value: normal

tag: cell lineage

value: mesoderm

tag: cell sex

value: F

tag: treatment

tag: treatment description

value: No special treatment or protocol applies

tag: antibody

value: Rabbit polyclonal against peptide conjugated to KLH derived from within residues 1600 - 1700 of S. cerevisiae RNA polymerase II CTD repeat YSPTSPS, phosphorylated at S2. Antibody Target:POL2S2

value: RNA polymerase II, large subunit- specific for phosphorylated C-terminal domain.

tag: antibody vendorname

value: Abcam

value: IgG-mus

value: Input signal from Normal Mouse IgG ChIP-seq.


title: Yale_ChipSeq_K562_IFNg30_c-Jun_std

value: Yale

tag: lab description

value: Snyder - Yale University

tag: datatype

tag: datatype description

value: Chromatin IP Sequencing

tag: cell

value: leukemia, "The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises." - ATCC

value: cancer

value: Interferon gamma treatment - 30 minutes (Snyder)

value: c-Jun

value: Rabbit polyclonal to amino acids 1-79 mapping at the N-terminus of c-Jun p39 of human origin. Antibody Target:c-Jun

value: Heterodimer of Fos and Jun constitute transcription factor AP1.  Proto-oncogene c-Jun is a leucine-zipper.

value: Santa Cruz Biotech

tag: antibody vendorid

tag: control

value: remapped from hg18


title: USC_ChipSeq_K562_Input_UCDavis

value: immortalized cell line

tag: lab

value: USC

value: Farnham - University of Southern California

value: ChipSeq

tag: line

tag: cell organism

value: human

tag: cell description

tag: cell karyotype

value: mesoderm

value: F

value: No special treatment or protocol applies

value: Input

tag: antibody description

value: Control signal which may be subtracted from experimental raw signal before peaks are called.

value: UCDavis

tag: control description

value: Input library was prepared at UC Davis.

value: Illumina 2.0, low confidence sequences excluded


title: Stanford_ChipSeq_HepG2_forskolin_PGC1A_std

value: Stanford

value: Snyder - Stanford University

value: Chromatin IP Sequencing

value: hepatocellular carcinoma

value: cancer

tag: cell lineage

value: endoderm

tag: cell sex

value: M

tag: treatment

value: forskolin

value: low-glucose DMEM with 0.5% BSA supplemented with 1uM forskolin and 1mM pyruvate for 6h. (Snyder)

tag: antibody antibodydescription

value: rabbit polyclonal IgG. Antibody Target:PGC1A

tag: antibody targetdescription

value: The protein encoded by this gene is a transcriptional coactivator that regulates the genes involved in energy metabolism. This protein interacts with PPARgamma, which permits the interaction of this protein with multiple transcription factors. This protein can interact with, and regulate the activities of, cAMP response element binding protein (CREB) and nuclear respiratory factors (NRFs).

value: std

value: Standard input signal for most experiments.

tag: controlid

tag: labversion

value: Illumina 2.0, low confidence sequences excluded.  Data paired with HepG2_Forskolin_Control.

tag: replicate


title: Stanford_ChipSeq_HepG2_Input_IgG-rab

tag: lab description

tag: datatype

value: ChipSeq

tag: datatype description

tag: cell

value: human

tag: treatment description

value: No special treatment or protocol applies

tag: antibody

value: Input

value: Control signal which may be subtracted from experimental raw signal before peaks are called.

value: IgG-rab

value: Input signal from Normal Rabbit IgG ChIP-seq.


title: Stanford_ChipSeq_HepG2_Pol2_IgG-rab

tag: lab

value: Stanford

value: Snyder - Stanford University

value: Chromatin IP Sequencing

tag: cell organism

tag: cell description

value: hepatocellular carcinoma

tag: cell karyotype

value: cancer

value: mouse monoclonal, clone 8WG16. Antibody Target:POL2

value: RNA Polymerase II

tag: antibody vendorname

value: Covance

tag: antibody vendorid

tag: control


title: Harvard_ChipSeq_MCF10A-Er-Src_Input_Harvard_Control

value: Harvard

value: Struhl - Harvard University

value: mammary gland, non-tumorigenic epithelial, inducible cell line, derived from the MCF-10A parental cells and contain ER-Src, a derivative of the Src kinase oncoprotein (v-Src) that is fused to the ligand-binding domain of the estrogen receptor (ER)

value: normal

tag: cell lineage

value: ectoderm

tag: cell sex

value: F

tag: treatment

tag: antibody description

tag: control description

value: input library was prepared at Harvard.


title: USC_ChipSeq_K562_E2F4_UCDavis

value: USC

tag: lab description

value: Farnham - University of Southern California

tag: datatype

value: ChipSeq

value: human

value: leukemia, "The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises." - ATCC

value: mesoderm

value: No special treatment or protocol applies

tag: antibody antibodydescription

value: rabbit polyclonal. Antibody Target:E2F4

tag: antibody targetdescription

value: mapping at the C-terminus of E2F4 of human origin

value: Santa Cruz Biotech

value: UCDavis

value: Input library was prepared at UC Davis.

tag: controlid

tag: labversion

value: Fragmented using Bioruptor, precipitated with StaphA (replicate 1) or protein A agarose beads (replicate 2), PeakSeq 1.0 (fdr 0.001) Illumina 2.0, low confidence sequences excluded

tag: replicate


title: USC_ChipSeq_HepG2_TR4_UCDavis

tag: lab

tag: datatype description

value: Chromatin IP Sequencing

tag: cell

tag: cell organism

tag: cell description

value: hepatocellular carcinoma

value: cancer

value: endoderm

value: M

tag: treatment description

tag: antibody

value: Rabbit polyclonal. Antibody Target:TR4

value: (Also:NR2C2) Members of the nuclear hormone receptor family, such as NR2C2, act as ligand-activated transcription factors. The proteins have an N-terminal transactivation domain, a central DNA-binding domain with 2 zinc fingers, and a ligand-binding domain at the C terminus.

value: Donated by Dr. J.D.Engel, University of Michigan

value: Fragmented using Bioruptor, precipitated with protein A agarose beads, PeakSeq 1.0 (fdr 0.001) Illumina 2.0, low confidence sequences excluded


title: USC_ChipSeq_K562_SETDB1_UCDavis

value: USC

value: Farnham - University of Southern California

value: ChipSeq

value: human

value: leukemia, "The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises." - ATCC

tag: cell karyotype

tag: cell lineage

value: mesoderm

tag: cell sex

value: F

tag: treatment

value: Rabbit polyclonal. Antibody Target:SETDB1

value: SET domain, bifurcated 1, the SET domain is a highly conserved, approximately 150-amino acid motif implicated in the modulation of chromatin structure

tag: antibody vendorname

value: Proteintech Group

tag: antibody vendorid

tag: control

value: Fragmented using Bioruptor, precipitated with StaphA

tag: softwareversion

value: PeakSeq1.0 (fdr 0.001)


title: Harvard_ChipSeq_K562_BRF1_std

value: Harvard

tag: lab description

value: Struhl - Harvard University

tag: datatype

value: Chromatin IP Sequencing

value: cancer

value: No special treatment or protocol applies

tag: antibody antibodydescription

value: Rabbit polyclonal - Anti-BRF antibody 128 was raised by immunising rabbits with synthetic peptide KISSKINYSVLRGLS (human BRF residues 533-547) coupled to keyhole limpet haemocyanin. Antibody Target:BRF1

tag: antibody targetdescription

value: 'B-related factor 1', subunit of RNA polymerase III transcription initiation factor IIIB

value: Donated by Dr. RJ White, The Beatson Institute for Cancer Research

value: std

tag: control description

value: Standard input signal for most experiments.

tag: controlid

tag: labversion

value: Illumina 2.0, low confidence sequences excluded, fragmented with both a probe sonicator and a Misonix sonicator, and precipitated with protein A sepharose beads


title: USC_ChipSeq_K562_E2F6_UCDavis

tag: lab

value: USC

value: Farnham - University of Southern California

value: ChipSeq

tag: datatype description

tag: cell

tag: cell organism

value: human

tag: cell description

value: leukemia, "The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises." - ATCC

value: mesoderm

value: F

tag: treatment description

value: Rabbit polyclonal IgG, epitope corresponding to a.a. 232-281 mapping at the C-terminus of E2F-6 of human origin. Antibody Target:E2F6

value: This gene encodes a member of the E2F transcription factor protein family. E2F family members play a crucial role in control of the cell cycle and of the action of tumor suppressor proteins. They are also a target of the transforming proteins of small DNA tumor viruses. Many E2F proteins contain several evolutionarily conserved domains:a DNA binding domain, a dimerization domain which determines interaction with the differentiation regulated transcription factor proteins (DP), a transactivation domain enriched in acidic amino acids, and a tumor suppressor protein association domain which is embedded within the transactivation domain. The encoded protein of this gene is atypical because it lacks the transactivation and tumor suppressor protein association domains. It contains a modular suppression domain and is an inhibitor of E2F-dependent transcription. The protein is part of a multimeric protein complex that contains a histone methyltransferase and the transcription factors Mga and Max. Multiple transcript variants have been reported for this gene, but it has not been clearly demonstrated that they encode valid isoforms (RefSeq).

value: Santa Cruz Biotech

value: UCDavis

value: Input library was prepared at UC Davis.

value: Fragmented using Bioruptor, precipitated with StaphA PeakSeq 1.0 (fdr 0.001) Lane A is Illumina 2.0, low confidence sequences excluded

tag: replicate


title: Harvard_ChipSeq_K562_BDP1_std

value: Harvard

value: Struhl - Harvard University

value: Chromatin IP Sequencing

tag: cell karyotype

value: cancer

tag: cell lineage

tag: cell sex

tag: treatment

value: No special treatment or protocol applies

tag: antibody

value: Rabbit polyclonal - Antiserum 2663 was raised by immunizing rabbits with synthetic peptide CSDRYRIYKAQKLRE (human Bdp1 residues 139?153) coupled to KLH. Antibody Target:BDP1

value: 'B double-prime 1', subunit of RNA polymerase III transcription initiation factor IIIB

tag: antibody vendorname

value: Donated by Dr. RJ White, The Beatson Institute for Cancer Research

tag: antibody vendorid

value: fragmented with both a probe sonicator and a Misonix sonicator, and precipitated with protein A sepharose beads


title: USC_ChipSeq_PBDE_Input_UCDavis

source_name: PBDE

value: USC

tag: lab description

value: Farnham - University of Southern California

tag: datatype

value: ChipSeq

value: PBDE

value: human

value: peripheral blood-derived erythroblasts

value: mesoderm

value: M

value: Input

tag: antibody description

value: Control signal which may be subtracted from experimental raw signal before peaks are called.

tag: control

tag: control description


title: USC_ChipSeq_HEK293_KAP1_UCDavis

tag: lab

tag: datatype description

value: Chromatin IP Sequencing

tag: cell

value: embryonic kidney, cells contain Adenovirus 5 DNA (PMID:11967234)

value: normal

value: U

tag: antibody antibodydescription

value: rabbit polyclonal. Antibody Target:KAP1

tag: antibody targetdescription

value: KRAB Associated Protein 1, helps regulate transcriptional repression

value: Abcam

value: UCDavis

value: Input library was prepared at UC Davis.

tag: controlid


title: USC_ChipSeq_SH-SY5Y_GATA-2_UCDavis

value: USC

value: Farnham - University of Southern California

value: ChipSeq

tag: cell organism

tag: cell description

value: neuroblastoma clonal subline of the neuroepithelioma cell line SK-N-SH from the 1970 bone marrow biopsy of a 4-year-old girl with metastatic neuroblastoma, trisomy of 1q

tag: cell karyotype

value: cancer

tag: cell lineage

value: ectoderm

value: F

tag: treatment description

value: No special treatment or protocol applies

value: Rabbit polyclonal. Antibody Target:GATA2

value: GATA binding protein 2

value: Donated by Dr. E.H. Bresnick, UW Madison

tag: replicate


title: Yale_ChipSeq_K562_IFNg6h_c-Myc_std

value: Yale

tag: lab description

value: Snyder - Yale University

value: Chromatin IP Sequencing

value: human

value: leukemia, "The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises." - ATCC

value: mesoderm

tag: cell sex

tag: treatment

value: Interferon gamma treatment - 6 hours (Snyder)

tag: antibody

value: c-Myc

value: rabbit polyclonal to amino acids 1-262 of c-Myc human origin. Antibody Target:c-Myc

value: transcription factor; c-Myc-encoded proteins function in cell proliferation,differentiation and neoplastic disease

tag: antibody vendorname

value: Santa Cruz Biotech

tag: antibody vendorid

value: std

value: Standard input signal for most experiments.

tag: labversion

value: remapped from hg18


title: Harvard_ChipSeq_MCF10A-Er-Src_EtOH_0.01pct_STAT3_std

tag: lab

value: Harvard

value: Struhl - Harvard University

tag: datatype

value: ChipSeq

tag: datatype description

tag: cell

value: mammary gland, non-tumorigenic epithelial, inducible cell line, derived from the MCF-10A parental cells and contain ER-Src, a derivative of the Src kinase oncoprotein (v-Src) that is fused to the ligand-binding domain of the estrogen receptor (ER)

value: normal

value: ectoderm

value: F

value: 36 h with 0.01% Ethanol (Snyder)

value: Rabbit polyclonal; epitope mapping at the C-terminus of Stat3 of mouse origin. Antibody Target:STAT3

value: Member of STAT family. After phosphorylation in response to cytokines and growth factors (including IFNs, EGF, IL5, IL6, HGF, LIF and BMP2), forms homo- or heterodimers that translocate to nucleus and activate transcription. Activates expression of a variety of genes with roles in processes such as cell growth and apoptosis.

tag: control

tag: control description


title: USC_ChipSeq_HEK293_ELK4_UCDavis

value: USC

value: Farnham - University of Southern California

value: Chromatin IP Sequencing

tag: cell organism

value: human

tag: cell description

value: embryonic kidney, cells contain Adenovirus 5 DNA (PMID:11967234)

tag: cell karyotype

value: mesoderm

value: U

value: No special treatment or protocol applies

tag: antibody antibodydescription

value: Rabbit polyclonal IgG. Antibody Target:ELK4

tag: antibody targetdescription

value: This gene is a member of the Ets family of transcription factors and of the ternary complex factor (TCF) subfamily. (provided by RefSeq)

value: UCDavis

value: Input library was prepared at UC Davis.

tag: controlid


title: Stanford_ChipSeq_HeLa-S3_TBP_IgG-rab

value: Stanford

tag: lab description

value: Snyder - Stanford University

value: ChipSeq

value: cervical carcinoma

value: cancer

tag: cell lineage

value: ectoderm

tag: cell sex

tag: treatment

tag: treatment description

value: TBP

value: Mouse monoclonal. Immunogen is synthetic peptide conjugated to KLH derived from within residues 1 - 100 of HumanTATA binding protein TBP. Antibody Target:TBP

value: General transcription factor that functions at the core of the DNA-binding multiprotein factor TFIID. Binding of TFIID to the TATA box is the initial transcriptional step of the pre-initiation complex (PIC), playing a role in the activation of eukaryotic genes transcribed by RNA polymerase II. Component of the transcription factor SL1/TIF-IB complex, which is involved in the assembly of the PIC (preinitiation complex) during RNA polymerase I-dependent transcription.

value: abcam

value: IgG-rab

value: Input signal from Normal Rabbit IgG ChIP-seq.

tag: replicate


title: USC_ChipSeq_HUVEC_c-Fos_UCDavis

source_name: HUVEC

tag: lab

value: USC

value: Farnham - University of Southern California

tag: datatype

value: Chromatin IP Sequencing

value: HUVEC

value: human

value: umbilical vein endothelial cells

value: normal

value: mesoderm

value: U

value: No special treatment or protocol applies

tag: antibody

value: c-Fos

value: Rabbit polyclonal to amino acids 210-335 mapping at the C-terminus of c-Fos of human origin. Antibody Target:c-Fos

value: Heterodimer of Fos and Jun constitute transcription factor AP1.  Proto-oncogene c-Jun is a leucine-zipper.

tag: antibody vendorname

value: Santa Cruz Biotech

tag: antibody vendorid


title: USC_ChipSeq_NT2-D1_ZNF274_UCDavis

value: ChipSeq

tag: datatype description

tag: cell

tag: cell organism

value: malignant pluripotent embryonal carcinoma (NTera-2), "The NTERA-2 cl.D1 cell line is a pluripotent human testicular embryonal carcinoma cell line derived by cloning the NTERA-2 cell line." - ATCC. (PMID:6694356)

value: cancer

value: inner cell mass

value: M

value: Mouse polyclonal antibody raised against a partial recombinant ZNF274 (GST-fusion of a.a.420-531 of human ZNF274 protein). Works in IP, WB and ELISA. Antibody Target:ZNF274

value: ZNF274 is a zinc finger protein containing five C2H2-type zinc finger domains, two Kruppel-associated box A (KRABA) domains, and a leucine-rich SCAN domain. The encoded protein has been suggested to be a transcriptional repressor. It localizes predominantly to the nucleolus.

value: ABNOVA

tag: control

value: UCDavis

tag: control description

value: Input library was prepared at UC Davis.


title: Stanford_ChipSeq_GM12878_COREST_(sc-30189)_IgG-mus

value: Stanford

value: Snyder - Stanford University

value: Chromatin IP Sequencing

value: human

tag: cell description

value: B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus

tag: cell karyotype

value: normal

value: mesoderm

value: F

tag: antibody antibodydescription

value: Rabbit polyclonal, epitope corresponding to amino acids 246-310 mapping within an internal region of CoREST of human origin recommended for detection of CoREST of mouse, rat and human origin. Antibody Target:COREST (sc30189)

tag: antibody targetdescription

value: Essential component of the BHC complex, a corepressor complex that represses transcription of neuron-specific genes in non-neuronal cells.  In the BHC complex, it serves as a molecular beacon for the recruitment of molecular machinery, including MeCP2 and SUV39H1, that imposes silencing across a chromosomal interval. Plays a central role in demethylation of Lys-4 of histone H3 by promoting demethylase activity of KDM1A on core histones and nucleosomal substrates.

value: IgG-mus

value: Input signal from Normal Mouse IgG ChIP-seq.

tag: controlid


title: Harvard_ChipSeq_HeLa-S3_BRF1_std

value: Harvard

tag: lab description

value: Struhl - Harvard University

value: ChipSeq

value: cervical carcinoma

value: cancer

tag: cell lineage

value: ectoderm

tag: cell sex

tag: treatment

tag: treatment description

value: No special treatment or protocol applies

value: Rabbit polyclonal - Anti-BRF antibody 128 was raised by immunising rabbits with synthetic peptide KISSKINYSVLRGLS (human BRF residues 533-547) coupled to keyhole limpet haemocyanin. Antibody Target:BRF1

value: 'B-related factor 1', subunit of RNA polymerase III transcription initiation factor IIIB

value: Donated by Dr. RJ White, The Beatson Institute for Cancer Research

value: std

value: Standard input signal for most experiments.


title: Harvard_ChipSeq_MCF10A-Er-Src_EtOH_0.01pct_Pol2_std

tag: lab

tag: datatype

value: Chromatin IP Sequencing

value: human

value: mammary gland, non-tumorigenic epithelial, inducible cell line, derived from the MCF-10A parental cells and contain ER-Src, a derivative of the Src kinase oncoprotein (v-Src) that is fused to the ligand-binding domain of the estrogen receptor (ER)

value: normal

value: F

value: 36 h with 0.01% Ethanol (Snyder)

tag: antibody

value: mouse monoclonal, clone 8WG16. Antibody Target:POL2

value: RNA Polymerase II

tag: antibody vendorname

value: Covance

tag: replicate


title: Stanford_ChipSeq_HeLa-S3_COREST_(sc-30189)_IgG-rab

value: Stanford

value: Snyder - Stanford University

value: ChipSeq

tag: datatype description

tag: cell

tag: cell organism

value: cervical carcinoma

value: cancer

value: Rabbit polyclonal, epitope corresponding to amino acids 246-310 mapping within an internal region of CoREST of human origin recommended for detection of CoREST of mouse, rat and human origin. Antibody Target:COREST (sc30189)

value: Essential component of the BHC complex, a corepressor complex that represses transcription of neuron-specific genes in non-neuronal cells.  In the BHC complex, it serves as a molecular beacon for the recruitment of molecular machinery, including MeCP2 and SUV39H1, that imposes silencing across a chromosomal interval. Plays a central role in demethylation of Lys-4 of histone H3 by promoting demethylase activity of KDM1A on core histones and nucleosomal substrates.

value: Santa Cruz Biotech

tag: antibody vendorid

tag: control

value: IgG-rab

value: Input signal from Normal Rabbit IgG ChIP-seq.


title: Stanford_ChipSeq_HepG2_COREST_(sc-30189)_IgG-rab

value: Chromatin IP Sequencing

value: human

tag: cell description

value: hepatocellular carcinoma

tag: cell karyotype

value: endoderm

value: M

value: No special treatment or protocol applies

tag: antibody antibodydescription

tag: antibody targetdescription

tag: control description


title: Stanford_ChipSeq_H1-hESC_Bach1_(sc-14700)_IgG-rab

tag: lab description

value: embryonic stem cells

value: normal

tag: cell lineage

value: inner cell mass

tag: cell sex

tag: treatment

value: BACH1 (C-20) is an affinity purified goat polyclonal antibody raised against a peptide mapping near the C-terminus of BACH1 of human origin. Antibody Target:Bach1

value: This gene encodes a transcription factor that belongs to the cap'n'collar type of basic region leucine zipper factor family (CNC-bZip). The encoded protein contains broad complex, tramtrack, bric-a-brac/poxvirus and zinc finger (BTB/POZ) domains, which is atypical of CNC-bZip family members. These BTB/POZ domains facilitate protein-protein interactions and formation of homo- and/or hetero-oligomers. When this encoded protein forms a heterodimer with MafK, it functions as a repressor of Maf recognition element (MARE) and transcription is repressed. Multiple alternatively spliced transcript variants have been identified for this gene. (provided by RefSeq)

tag: controlid


title: USC_ChipSeq_U2OS_KAP1_UCDavis

tag: lab

value: USC

value: Farnham - University of Southern California

tag: datatype

value: ChipSeq

value: osteosarcoma from the tibia of a 15 year old, J. Ponten and E. Saksela derived this line (originally 2T) in 1964 from a moderately differentiated sarcoma, viruses were not detected during co-cultivation with WI-38 cells or in CF tests against SV40, RSV or adenoviruses, mycoplasma contamination was detected and eliminated in 1972, (PMID:6081590)

value: cancer

value: mesoderm

value: F

tag: treatment description

tag: antibody

value: rabbit polyclonal. Antibody Target:KAP1

value: KRAB Associated Protein 1, helps regulate transcriptional repression

tag: antibody vendorname

value: Abcam

value: UCDavis

value: Input library was prepared at UC Davis.


title: USC_ChipSeq_HEK293-T-REx_ZNF263_UCDavis

tag: datatype description

value: Chromatin IP Sequencing

tag: cell

tag: cell organism

value: human

value: embryonic kidney cells transformed with Adenovirus 5 DNA stably expressing tetracycline repressor, HEK293 (ATCC number CRL-1573) is the parental cell line, hypotriploid, XXX

value: No special treatment or protocol applies

value: Mouse polyclonal. Antibody Target:ZNF263

value: ZNF263 (NP_005732, 201 a.a. ~ 299 a.a) partial recombinant protein with GST tag.

value: Novus Biologicals

tag: antibody vendorid

tag: replicate


title: Stanford_ChipSeq_K562_TBLR1_(ab24550)_IgG-rab

value: Stanford

value: Snyder - Stanford University

value: ChipSeq

tag: cell description

value: leukemia, "The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises." - ATCC

tag: cell karyotype

tag: antibody antibodydescription

value: Rabbit polyclonal, immunogen:Recombinant full length protein (Human). Antibody Target:TBLR1

tag: antibody targetdescription

value: F-box-like protein involved in the recruitment of the ubiquitin/19S proteasome complex to nuclear receptor-regulated transcription units. Plays an essential role in transcription activation mediated by nuclear receptors. Probably acts as integral component of the N-Cor corepressor complex that mediates the recruitment of the 19S proteasome complex, leading to the subsequent proteasomal degradation of N-Cor complex, thereby allowing cofactor exchange, and transcription activation

tag: control

value: IgG-rab

value: Input signal from Normal Rabbit IgG ChIP-seq.


title: USC_ChipSeq_K562_MNaseD_SETDB1_UCDavis

treatment_protocol: MNaseD

value: USC

tag: lab description

value: Farnham - University of Southern California

value: cancer

tag: cell lineage

value: mesoderm

tag: cell sex

value: F

tag: treatment

value: MNaseD

value: Fragmented using micrococcal nuclease digestion

value: Rabbit polyclonal. Antibody Target:SETDB1

value: SET domain, bifurcated 1, the SET domain is a highly conserved, approximately 150-amino acid motif implicated in the modulation of chromatin structure

value: Proteintech Group

value: UCDavis

tag: control description

tag: labversion

value: remapped from hg18, Fragmented using MNase and used proteinA agarose beads for ChIPs, PeakSeq 1.0 (fdr 0.001)


title: Stanford_ChipSeq_HUVEC_Max_std

tag: lab

value: Stanford

value: Snyder - Stanford University

tag: datatype

value: ChipSeq

value: Chromatin IP Sequencing

value: HUVEC

value: human

value: umbilical vein endothelial cells

value: normal

value: U

tag: treatment description

value: No special treatment or protocol applies

tag: antibody

value: Max

value: Rabbit polyclonal IgG, epitope mapping at the C-terminus of Max of human origin. Antibody Target:Max

value: The protein encoded by this gene is a member of the basic helix-loop-helix leucine zipper (bHLHZ) family of transcription factors. It is able to form homodimers and heterodimers with other family members, which include Mad, Mxi1 and Myc. Myc is an oncoprotein implicated in cell proliferation, differentiation and apoptosis. The homodimers and heterodimers compete for a common DNA target site (the E box) and rearrangement among these dimer forms provides a complex system of transcriptional regulation. Multiple alternatively spliced transcript variants have been described for this gene but the full-length nature for some of them is unknown (RefSeq).

tag: antibody vendorname

value: Santa Cruz Biotech

value: std

value: Standard input signal for most experiments.

tag: controlid

value: Illumina 2.0, low confidence sequences excluded


title: Stanford_ChipSeq_K562_TBLR1_(NB600-270)_IgG-rab

value: Stanford

tag: datatype description

tag: cell

tag: cell organism

tag: cell description

value: leukemia, "The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises." - ATCC

value: cancer

value: mesoderm

value: F

value: Rabbit polyclonal, immunogen:A synthetic peptide that maps to a region between residues 100 and 150 of human TBL1-related Protein 1 using the numbering given in SwissProt entry Q9BZK7.

value: F-box-like protein involved in the recruitment of the ubiquitin/19S proteasome complex to nuclear receptor-regulated transcription units. Plays an essential role in transcription activation mediated by nuclear receptors. Probably acts as integral component of the N-Cor corepressor complex that mediates the recruitment of the 19S proteasome complex, leading to the subsequent proteasomal degradation of N-Cor complex, thereby allowing cofactor exchange, and transcription activation

value: Novus Biologicals

tag: antibody vendorid

value: IgG-rab

value: Input signal from Normal Rabbit IgG ChIP-seq.

tag: replicate


title: Stanford_ChipSeq_HeLa-S3_IRF3_IgG-rab

tag: lab description

value: Snyder - Stanford University

value: ChipSeq

value: Chromatin IP Sequencing

value: human

value: cervical carcinoma

tag: cell karyotype

tag: cell lineage

value: ectoderm

value: No special treatment or protocol applies

tag: antibody antibodydescription

value: Rabbit polyclonal; epitope corresponding to amino acids 1-425 of IRF-3 of human origin. Antibody Target:IRF3

tag: antibody targetdescription

value: Mediates interferon-stimulated response element (ISRE) promoter activation. DsRNA leads to IRF3 phosphorylation on the C-terminal serine/threonine cluster. This induces a conformational change, leading to its dimerization, nuclear localization and association with CREB binding protein (CREBBP) to form dsRNA-activated factor 1 (DRAF1), a complex which activates the transcription of genes under the control of ISRE.

tag: control


title: Stanford_ChipSeq_HeLa-S3_Rad21_IgG-rab

tag: lab

value: Stanford

tag: datatype

value: cancer

tag: cell sex

tag: treatment

value: Rabbit polyclonal. Antibody Target:RAD21

value: Synthetic peptide (Human) conjugated to KLH - which represents a portion of human Rad21 encoded within exon 14

value: Abcam

tag: control description


title: Stanford_ChipSeq_K562_Znf143_(16618-1-AP)_IgG-rab

tag: datatype description

value: leukemia, "The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises." - ATCC

value: mesoderm

value: F

tag: treatment description

tag: antibody

value: Rabbit polyclonal against human ZNF143 (amino acids 283-626)-6his fusion protein. Antibody Target:Znf143

value: Transcriptional activator. Activates the gene for selenocysteine tRNA (tRNAsec). Binds to the SPH motif of small nuclear RNA (snRNA) gene promoters. Participates to efficient U6 RNA polymerase III transcription via its interaction with CHD8

tag: antibody vendorname

value: Proteintech

tag: controlid


title: Stanford_ChipSeq_GM12878_TNFa_Input_IgG-rab

treatment_protocol: TNFa

value: Snyder - Stanford University

value: ChipSeq

value: Chromatin IP Sequencing

tag: cell

tag: cell organism

value: human

tag: cell description

value: B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus

value: normal

value: TNFa

value: human recombinant TNF-alpha from eBioscience [product# 14-8329-62] (Snyder)

value: Input

tag: antibody description

value: Control signal which may be subtracted from experimental raw signal before peaks are called.

value: IgG-rab

value: Input signal from Normal Rabbit IgG ChIP-seq.

tag: labversion

value: remapped from hg18

tag: replicate


title: Stanford_ChipSeq_HepG2_BHLHE40_(NB100-1800)_IgG-rab

value: Stanford

tag: lab description

value: hepatocellular carcinoma

tag: cell karyotype

value: cancer

tag: cell lineage

value: endoderm

value: M

value: No special treatment or protocol applies

tag: antibody antibodydescription

value: Rabbit polyclonal, maps to a region between residues 350 and the C-terminus (residue 412). Antibody Target:BHLHE40

tag: antibody targetdescription

value: This gene encodes a basic helix-loop-helix protein expressed in various tissues. Expression in the chondrocytes is responsive to the addition of Bt2cAMP. The encoded protein is believed to be involved in the control of cell differentiation.

value: Novus

tag: antibody vendorid

tag: control


title: Stanford_ChipSeq_K562_JunD_IgG-rab

tag: lab

value: Snyder - Stanford University

tag: datatype

value: ChipSeq

tag: datatype description

value: Chromatin IP Sequencing

value: human

value: leukemia, "The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises." - ATCC

value: mesoderm

tag: cell sex

value: F

tag: treatment

tag: treatment description

value: JunD

value: rabbit polyclonal IgG. Antibody Target:JunD

value: The protein encoded by this intronless gene is a member of the JUN family, and a functional component of the AP1 transcription factor complex. It has been proposed to protect cells from p53-dependent senescence and apoptosis. Alternate translation initiation site usage results in the production of different isoforms. (provided by RefSeq)

value: Santa Cruz Biotech

tag: control description


title: USC_ChipSeq_SH-SY5Y_GATA3_(SC-269)_UCDavis

value: USC

value: Farnham - University of Southern California

tag: cell

tag: cell organism

tag: cell description

value: neuroblastoma clonal subline of the neuroepithelioma cell line SK-N-SH from the 1970 bone marrow biopsy of a 4-year-old girl with metastatic neuroblastoma, trisomy of 1q

value: cancer

value: ectoderm

tag: antibody

value: Mouse monoclonal IgG raised against human recombinant GATA-3 (amino acids 1-264). Antibody Target:GATA3

value: This gene encodes a protein which belongs to the GATA family of transcription factors. The protein contains two GATA-type zinc fingers and is a n important regulator of T-cell development and plays an important role in endothelial cell biology. Defects in this gene are the cause of hypoparathyroidism with sensorineural deafness and renal dysplasia (provided by RefSeq)

tag: antibody vendorname

value: UCDavis

value: Input library was prepared at UC Davis.

tag: controlid


title: Stanford_ChipSeq_K562_RFX5_(200-401-194)_IgG-rab

value: Stanford

tag: lab description

value: Snyder - Stanford University

value: ChipSeq

value: Chromatin IP Sequencing

value: human

tag: cell karyotype

tag: cell lineage

value: No special treatment or protocol applies

tag: antibody antibodydescription

value: Rabbit polyclonal against RFX5 peptide corresponding to a region at amino acids 320 to 494 of the human protein conjugated to Keyhole Limpet Hemocyanin. Antibody Target:RFX5

value: Activates transcription from class II MHC promoters. Recognizes X-boxes. Mediates cooperative binding betweenRFX and NF-Y. RFX binds the X1 box of MHC-II promoters

value: Rockland Immunochemicals

value: IgG-rab

value: Input signal from Normal Rabbit IgG ChIP-seq.

tag: replicate


title: Stanford_ChipSeq_H1-hESC_GTF2F1_(AB28179)_IgG-rab

tag: lab

tag: datatype

value: embryonic stem cells

value: normal

value: inner cell mass

value: M

value: Rabbit polyclonal to TFIIF - Recombinant full length protein - RAP 74 subunit of TF11F. Antibody Target:GTF2F1

tag: antibody targetdescription

value: RNA polymerase II transcription factor TFIIF is a heterodimer with 2 subunits:one, referred to as RAP74. TFIIF appears to assist TFIIB in recruiting RNA polymerase II into a preinitiation complex. It also affects RNA transcription by suppressing transient pausing of the polymerase at locations on the DNA template.

value: Abcam

tag: antibody vendorid

tag: control


title: USC_ChipSeq_MCF-7_ZNF217_UCDavis

value: USC

value: Farnham - University of Southern California

tag: datatype description

value: mammary gland, adenocarcinoma. (PMID:4357757), newly promoted to tier 2:not in 2011 analysis

value: cancer

value: ectoderm

tag: cell sex

value: F

tag: treatment

tag: treatment description

value: A rabbit polyclonal antibody raised against a recombinant ZNF217 protein corresponding to the 1562-2207 nucleotides from a human ZNF217 cDNA. Antibody Target:ZNF217

value: ZNF217 is an important oncogene based on the high frequency of amplification and overexpression in many cancer types, but its molecular mode of gene regulation is poorly understood. ZNF217 has been purified in complexes that contain repressor proteins such as CtBP2, suggesting that it acts as a transcriptional repressor. ZNF217 contains seven C2H2 zinc finger domains and has been shown to bind to gene promoters

value: From the lab of Dr. Paul Yaswen

value: UCDavis

tag: control description

value: Input library was prepared at UC Davis.


title: Stanford_ChipSeq_HeLa-S3_RFX5_(200-401-194)_IgG-rab

value: Stanford

value: Snyder - Stanford University

value: ChipSeq

value: Chromatin IP Sequencing

tag: cell

tag: cell organism

value: human

tag: cell description

value: cervical carcinoma

value: No special treatment or protocol applies

tag: antibody

value: Rabbit polyclonal against RFX5 peptide corresponding to a region at amino acids 320 to 494 of the human protein conjugated to Keyhole Limpet Hemocyanin. Antibody Target:RFX5

value: Activates transcription from class II MHC promoters. Recognizes X-boxes. Mediates cooperative binding betweenRFX and NF-Y. RFX binds the X1 box of MHC-II promoters

tag: antibody vendorname

value: Rockland Immunochemicals

value: IgG-rab

value: Input signal from Normal Rabbit IgG ChIP-seq.


title: Stanford_ChipSeq_GM12878_USF2_IgG-mus

tag: lab description

value: B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus

tag: cell karyotype

value: normal

tag: cell lineage

value: mesoderm

value: F

tag: antibody antibodydescription

value: Mouse monoclonal. Immunogen corresponds to amino acids 1-101 of Human USF2. Antibody Target:USF2

value: Encodes a member of the basic helix-loop-helix leucine zipper family. The encoded protein can activate transcription through pyrimidine-rich initiator (Inr) elements and E-box motifs (5'-CACGTG-3').

value: abcam

value: IgG-mus

value: Input signal from Normal Mouse IgG ChIP-seq.

tag: controlid


title: Stanford_ChipSeq_K562_Bach1_(sc-14700)_IgG-rab

tag: lab

value: Stanford

value: Snyder - Stanford University

tag: datatype

value: ChipSeq

value: Chromatin IP Sequencing

value: human

value: leukemia, "The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises." - ATCC

value: cancer

value: BACH1 (C-20) is an affinity purified goat polyclonal antibody raised against a peptide mapping near the C-terminus of BACH1 of human origin. Antibody Target:Bach1

tag: antibody targetdescription

value: This gene encodes a transcription factor that belongs to the cap'n'collar type of basic region leucine zipper factor family (CNC-bZip). The encoded protein contains broad complex, tramtrack, bric-a-brac/poxvirus and zinc finger (BTB/POZ) domains, which is atypical of CNC-bZip family members. These BTB/POZ domains facilitate protein-protein interactions and formation of homo- and/or hetero-oligomers. When this encoded protein forms a heterodimer with MafK, it functions as a repressor of Maf recognition element (MARE) and transcription is repressed. Multiple alternatively spliced transcript variants have been identified for this gene. (provided by RefSeq)

value: Santa Cruz Biotech

tag: antibody vendorid

tag: replicate


title: Stanford_ChipSeq_HeLa-S3_USF2_IgG-mus

tag: datatype description

value: cervical carcinoma

value: ectoderm

tag: cell sex

tag: treatment

tag: treatment description

value: No special treatment or protocol applies

tag: control


title: Stanford_ChipSeq_GM12878_p300_(SC-584)_std

tag: cell

tag: cell organism

tag: cell description

value: B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus

value: normal

value: mesoderm

value: F

tag: antibody

value: Rabbit polyclonal IgG, epitope mapping at the N-terminus of p300 of human origin. Antibody Target:P300

value: Encodes the adenovirus E1A-associated cellular p300 transcriptional co-activator protein. Functions as histone acetyltransferase and regulates transcription via chromatin remodeling. Acetylates all four core histones in nucleosomes. Mediates cAMP-gene regulation by binding specifically to phosphorylated CREB protein

value: std

tag: control description

value: Standard input signal for most experiments.


title: Stanford_ChipSeq_GM12878_STAT3_IgG-mus

value: Stanford

tag: lab description

value: Snyder - Stanford University

value: ChipSeq

value: Chromatin IP Sequencing

value: human

tag: cell karyotype

tag: cell lineage

tag: antibody antibodydescription

value: Rabbit polyclonal; epitope mapping at the C-terminus of Stat3 of mouse origin. Antibody Target:STAT3

value: Member of STAT family. After phosphorylation in response to cytokines and growth factors (including IFNs, EGF, IL5, IL6, HGF, LIF and BMP2), forms homo- or heterodimers that translocate to nucleus and activate transcription. Activates expression of a variety of genes with roles in processes such as cell growth and apoptosis.

tag: antibody vendorname

value: IgG-mus

value: Input signal from Normal Mouse IgG ChIP-seq.


title: Stanford_ChipSeq_GM12878_RFX5_(200-401-194)_IgG-mus

tag: lab

tag: datatype

value: B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus

value: No special treatment or protocol applies

value: Rabbit polyclonal against RFX5 peptide corresponding to a region at amino acids 320 to 494 of the human protein conjugated to Keyhole Limpet Hemocyanin. Antibody Target:RFX5

tag: antibody targetdescription

value: Activates transcription from class II MHC promoters. Recognizes X-boxes. Mediates cooperative binding betweenRFX and NF-Y. RFX binds the X1 box of MHC-II promoters

value: Rockland Immunochemicals

tag: antibody vendorid

tag: controlid


title: Stanford_ChipSeq_GM12878_p300_(SC-584)_IgG-mus

tag: datatype description

value: normal

value: mesoderm

tag: cell sex

value: F

tag: treatment

tag: treatment description

value: Rabbit polyclonal IgG, epitope mapping at the N-terminus of p300 of human origin. Antibody Target:P300

value: Encodes the adenovirus E1A-associated cellular p300 transcriptional co-activator protein. Functions as histone acetyltransferase and regulates transcription via chromatin remodeling. Acetylates all four core histones in nucleosomes. Mediates cAMP-gene regulation by binding specifically to phosphorylated CREB protein

value: Santa Cruz Biotech

tag: replicate


title: Stanford_ChipSeq_HeLa-S3_GTF2F1_(AB28179)_IgG-rab

value: Stanford

value: Snyder - Stanford University

value: ChipSeq

value: Chromatin IP Sequencing

tag: cell

tag: cell organism

tag: cell description

value: cervical carcinoma

value: cancer

value: ectoderm

tag: antibody

value: Rabbit polyclonal to TFIIF - Recombinant full length protein - RAP 74 subunit of TF11F. Antibody Target:GTF2F1

value: RNA polymerase II transcription factor TFIIF is a heterodimer with 2 subunits:one, referred to as RAP74. TFIIF appears to assist TFIIB in recruiting RNA polymerase II into a preinitiation complex. It also affects RNA transcription by suppressing transient pausing of the polymerase at locations on the DNA template.

value: Abcam

tag: control

value: IgG-rab

value: Input signal from Normal Rabbit IgG ChIP-seq.


title: Stanford_ChipSeq_HeLa-S3_PRDM1_(9115)_IgG-rab

tag: lab description

value: human

tag: cell karyotype

tag: cell lineage

value: No special treatment or protocol applies

tag: antibody antibodydescription

value: Rabbit Monoclonal antibody against a synthetic peptide corresponding to residues surrounding Val90 of human PRDI-BF1. Antibody Target:PRDM1

value: Transcriptional repressor that binds specifically to the PRDI element in the promoter of the beta-interferon gene. Drives the maturation of B-lymphocytes into Ig secreting cells.

value: Cell Signaling Technology

tag: control description


title: Stanford_ChipSeq_HeLa-S3_CEBPB_IgG-rab

tag: lab

value: Stanford

tag: datatype

value: F

value: CEBPB

value: Rabbit polyclonal IgG. Antibody Target:CEBPB

tag: antibody targetdescription

value: epitope mapping at the C-terminus of C/EBP-beta of rat origin

tag: antibody vendorname

value: Santa Cruz Biotech

tag: antibody vendorid


title: Harvard_ChipSeq_MCF10A-Er-Src_EtOH_0.01pct_12hr_Input_std

value: Harvard

value: Struhl - Harvard University

value: ChipSeq

tag: datatype description

value: Chromatin IP Sequencing

value: mammary gland, non-tumorigenic epithelial, inducible cell line, derived from the MCF-10A parental cells and contain ER-Src, a derivative of the Src kinase oncoprotein (v-Src) that is fused to the ligand-binding domain of the estrogen receptor (ER)

value: normal

value: ectoderm

tag: cell sex

tag: treatment

tag: treatment description

value: 12 h with 0.01% Ethanol (Snyder)

value: Input

tag: antibody description

value: Control signal which may be subtracted from experimental raw signal before peaks are called.

value: std

value: Standard input signal for most experiments.

tag: controlid


title: Harvard_ChipSeq_MCF10A-Er-Src_EtOH_0.01pct_12hr_STAT3_std

tag: cell

tag: cell organism

value: human

tag: cell description

value: F

tag: antibody

value: Rabbit polyclonal; epitope mapping at the C-terminus of Stat3 of mouse origin. Antibody Target:STAT3

value: Member of STAT family. After phosphorylation in response to cytokines and growth factors (including IFNs, EGF, IL5, IL6, HGF, LIF and BMP2), forms homo- or heterodimers that translocate to nucleus and activate transcription. Activates expression of a variety of genes with roles in processes such as cell growth and apoptosis.

tag: control

tag: replicate


title: Stanford_ChipSeq_HeLa-S3_BRCA1_(A300-000A)_IgG-rab

tag: lab

value: Stanford

tag: lab description

value: Snyder - Stanford University

value: cervical carcinoma

tag: cell karyotype

value: cancer

tag: cell lineage

value: No special treatment or protocol applies

tag: antibody antibodydescription

value: Rabbit polyclonal recognizing a region between residue 1800 and the C-terminus (residue 1863) of human Breast Cancer Gene 1. Antibody Target:BRCA1

value: Nuclear phosphoprotein that plays a role in maintaining genomic stability, and acts as a tumor suppressor. Associates with RNA polymerase II, and through the C-terminal domain, also interacts with histone deacetylase complexes. Plays a role in transcription, DNA repair of double-stranded breaks, and recombination. Mutations in this gene are responsible for approximately 40% of inherited breast cancers and more than 80% of inherited breast and ovarian cancers.

value: Bethyl Labratories

value: IgG-rab

tag: control description

value: Input signal from Normal Rabbit IgG ChIP-seq.


title: Harvard_ChipSeq_K562_CCNT2_std

value: Harvard

value: Struhl - Harvard University

tag: datatype

value: ChipSeq

tag: datatype description

value: Chromatin IP Sequencing

value: leukemia, "The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises." - ATCC

value: mesoderm

tag: cell sex

value: Goal polyclonal. Raised against an internal region of human CycT2a/b. Recommeded for detection of CycT2a/b of rat, mouse or human origin. Vendor recommeds it use for the folloiwng applications:WB, IF and ELISA. Antibody Target:CCNT2

tag: antibody targetdescription

value: CycT2 is one of three cyclins that can form a heterodimer with cyclin-dependent kinase 9 (CDK9). The heterodimer is known as positive elongation factor b (P-TEFb) and is responsible for the phosphophorylation of Ser2 of the heptad repeat in the C-terminal domain of RNA polymerase II as well as the negative elongation factors DSIF (hSpt4/hSpt5) and NELF. Phosphorylation of RNA polymerase II and the negative elongation factors by P-TEFb promotes elongation. CycT2 contains a leucine rich domain capable of binding to the C-terminal domain of RNA polymerase II.

tag: antibody vendorname

value: Santa Cruz Biotechnology

tag: antibody vendorid


title: Stanford_ChipSeq_K562_IFNg30_c-Myc_std

value: Stanford

value: Snyder - Stanford University

tag: cell

tag: cell organism

value: human

value: F

tag: treatment

tag: treatment description

value: Interferon gamma treatment - 30 minutes (Snyder)

value: c-Myc

value: rabbit polyclonal to amino acids 1-262 of c-Myc human origin. Antibody Target:c-Myc

value: transcription factor; c-Myc-encoded proteins function in cell proliferation,differentiation and neoplastic disease

value: Santa Cruz Biotech

value: std

value: Standard input signal for most experiments.

tag: controlid


title: Stanford_ChipSeq_K562_IFNa30_IRF1_std

tag: lab

value: ChipSeq

value: Chromatin IP Sequencing

tag: cell description

value: cancer

value: 30 m of Interferon alpha (Snyder)

tag: antibody

value: IRF-1 (C-20) is an affinity purified rabbit polyclonal antibody raised against a peptide mapping at the C-terminus of IRF-1 of human origin. Antibody Target:IRF1

value: Interferon regulatory factor 1 is a member of the interferon regulatory transcription factor (IRF) family. IRF1 serves as an activator of interferons alpha and beta transcription and also functions as a transcription activator of genes induced by interferons alpha, beta, and gamma. IRF1 has been shown to play roles in regulating apoptosis and tumor suppression.

tag: control

tag: replicate


title: Stanford_ChipSeq_K562_IFNg6h_IRF1_std

value: Stanford

tag: lab description

value: leukemia, "The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises." - ATCC

tag: cell karyotype

tag: cell lineage

value: mesoderm

value: Interferon gamma treatment - 6 hours (Snyder)

tag: antibody antibodydescription

tag: control description


title: Harvard_ChipSeq_K562_HMGN3_std

value: Harvard

value: Struhl - Harvard University

tag: datatype

tag: datatype description

value: human

tag: cell sex

value: F

value: No special treatment or protocol applies

value: Rabbit polyclonal. Raised against an amino acids 60 to 99 of human HMGN3. Vendor recommeds its use for detection of HMGN3 in human samples using immunohistochemistry. Antibody Target:HMGN3

tag: antibody targetdescription

value: HMGN3 is a high-mobility group protein. These proteins are small, 8 to 11 kDa, ubiquitous proteins believed to play a role in chromatin structure. HMGNs bind to nucleosomes between the histone core and DNA and reduce chromatin compaction. As a result HMGNs, HMGN3 included, are believed to increase access to DNA for DNA replication, repair and transcription. HMGN3 has specifically been implicated in the action of Thyroid horomone receptors.

tag: antibody vendorname

value: Novus Biologicals


title: Stanford_ChipSeq_HepG2_Pol2(phosphoS2)_IgG-rab

value: Snyder - Stanford University

value: ChipSeq

value: Chromatin IP Sequencing

tag: cell

tag: cell organism

value: hepatocellular carcinoma

value: endoderm

value: M

tag: treatment

tag: treatment description

value: Rabbit polyclonal against peptide conjugated to KLH derived from within residues 1600 - 1700 of S. cerevisiae RNA polymerase II CTD repeat YSPTSPS, phosphorylated at S2. Antibody Target:POL2S2

value: RNA polymerase II, large subunit- specific for phosphorylated C-terminal domain.

value: Abcam

tag: antibody vendorid

value: IgG-rab

value: Input signal from Normal Rabbit IgG ChIP-seq.


title: Stanford_ChipSeq_HepG2_SMC3_(ab9263)_IgG-rab

tag: lab

value: Stanford

value: human

tag: cell description

value: cancer

tag: antibody

value: Rabbit polyclonal raised against synthetic peptide representing a portion within the last 100 amino acids of the human Structural Maintenance of Chromosomes-3 conjugated to KLH. Antibody Target:SMC3

value: Involved in chromosome cohesion during cell cycle and in DNA repair. Central component of cohesin complex.  The cohesin complex is required for the cohesion of sister chromatids after DNA replication.

tag: control

tag: controlid


title: Yale_ChipSeq_GM12878_JunD_std

value: Yale

tag: lab description

value: Snyder - Yale University

value: B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus

tag: cell karyotype

value: normal

tag: cell lineage

value: mesoderm

value: F

value: No special treatment or protocol applies

value: JunD

tag: antibody antibodydescription

value: rabbit polyclonal IgG. Antibody Target:JunD

value: The protein encoded by this intronless gene is a member of the JUN family, and a functional component of the AP1 transcription factor complex. It has been proposed to protect cells from p53-dependent senescence and apoptosis. Alternate translation initiation site usage results in the production of different isoforms. (provided by RefSeq)

value: Santa Cruz Biotech

value: std

value: Standard input signal for most experiments.

tag: replicate


title: Stanford_ChipSeq_HepG2_p300_(SC-584)_IgG-rab

value: Stanford

value: Snyder - Stanford University

tag: datatype

value: ChipSeq

tag: datatype description

value: Chromatin IP Sequencing

value: human

value: hepatocellular carcinoma

value: endoderm

tag: cell sex

value: M

value: Rabbit polyclonal IgG, epitope mapping at the N-terminus of p300 of human origin. Antibody Target:P300

tag: antibody targetdescription

value: Encodes the adenovirus E1A-associated cellular p300 transcriptional co-activator protein. Functions as histone acetyltransferase and regulates transcription via chromatin remodeling. Acetylates all four core histones in nucleosomes. Mediates cAMP-gene regulation by binding specifically to phosphorylated CREB protein

value: IgG-rab

tag: control description

value: Input signal from Normal Rabbit IgG ChIP-seq.


title: Yale_ChipSeq_K562_Max_std

value: Yale

value: Snyder - Yale University

tag: cell

tag: cell organism

value: leukemia, "The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises." - ATCC

value: cancer

value: mesoderm

value: F

tag: treatment

tag: treatment description

value: No special treatment or protocol applies

value: Max

value: Rabbit polyclonal IgG, epitope mapping at the C-terminus of Max of human origin. Antibody Target:Max

value: The protein encoded by this gene is a member of the basic helix-loop-helix leucine zipper (bHLHZ) family of transcription factors. It is able to form homodimers and heterodimers with other family members, which include Mad, Mxi1 and Myc. Myc is an oncoprotein implicated in cell proliferation, differentiation and apoptosis. The homodimers and heterodimers compete for a common DNA target site (the E box) and rearrangement among these dimer forms provides a complex system of transcriptional regulation. Multiple alternatively spliced transcript variants have been described for this gene but the full-length nature for some of them is unknown (RefSeq).

tag: antibody vendorname


title: Yale_ChipSeq_HeLa-S3_Input_Large_Fragment

tag: lab

value: ChipSeq

value: Chromatin IP Sequencing

value: human

tag: cell description

value: cervical carcinoma

value: ectoderm

tag: antibody

value: Input

tag: antibody description

value: Control signal which may be subtracted from experimental raw signal before peaks are called.

tag: control

value: Control signal from sonication into large fragments of DNA (350-800 bp).

tag: labversion

value: remapped from hg18


title: Yale_ChipSeq_HeLa-S3_Input_Naked_DNA

value: Yale

tag: lab description

value: Snyder - Yale University

tag: cell karyotype

tag: cell lineage

value: Control signal from Naked DNA.

tag: controlid

tag: replicate


title: Yale_ChipSeq_HeLa-S3_Input_IgG-mus

tag: datatype

tag: datatype description

value: cancer

tag: cell sex

value: F

value: IgG-mus

tag: control description

value: Input signal from Normal Mouse IgG ChIP-seq.


title: Yale_ChipSeq_HeLa-S3_Input_MNase

tag: cell

tag: cell organism

tag: treatment

tag: treatment description

value: No special treatment or protocol applies

value: MNase

value: Input signal from MNase digested DNA.


title: USC_ChipSeq_K562_GATA-1_UCDavis

tag: lab

value: USC

value: Farnham - University of Southern California

value: ChipSeq

value: Chromatin IP Sequencing

value: human

tag: cell description

value: leukemia, "The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises." - ATCC

value: mesoderm

tag: antibody

tag: antibody antibodydescription

value: Anti-GATA-1 rabbit polyclonal antibody was generated by using a purified GST fusion to amino acids 1-89 of mouse GATA-1. Antibody Target:GATA1

tag: antibody targetdescription

value: GATA-1 is a transcriptional activator which probably serves as a general switch factor for erythroid development. It binds to DNA sites with the consensus sequence [AT]GATA[AG} within regulatory regions of globin genes and of other genes expressed in erythroid cells.

tag: antibody vendorname

value: Donated by Dr. E.H. Bresnick, UW Madison

tag: antibody vendorid

value: UCDavis

value: Input library was prepared at UC Davis.

value: Fragmented using Bioruptor, precipitated with protein A agarose beads,

tag: softwareversion

value: PeakSeq1.0 (fdr 0.001)


title: Yale_ChipSeq_HEK293_Input_std

value: Yale

tag: lab description

value: Snyder - Yale University

value: embryonic kidney, cells contain Adenovirus 5 DNA (PMID:11967234)

tag: cell karyotype

value: normal

tag: cell lineage

value: U

value: No special treatment or protocol applies

value: Input

tag: antibody description

value: Control signal which may be subtracted from experimental raw signal before peaks are called.

tag: control

value: std

value: Standard input signal for most experiments.

tag: controlid


title: USC_ChipSeq_K562_ZNF263_UCDavis

value: USC

value: Farnham - University of Southern California

tag: datatype

value: ChipSeq

tag: datatype description

value: Chromatin IP Sequencing

tag: cell

tag: cell organism

value: human

value: leukemia, "The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises." - ATCC

value: cancer

value: mesoderm

tag: cell sex

value: F

value: Mouse polyclonal. Antibody Target:ZNF263

value: ZNF263 (NP_005732, 201 a.a. ~ 299 a.a) partial recombinant protein with GST tag.

value: Novus Biologicals

tag: control description

tag: labversion

value: Fragmented using Bioruptor, precipitated with StaphA

tag: replicate


title: Stanford_ChipSeq_GM18526_Input_IgG-mus

tag: lab

value: Stanford

value: Snyder - Stanford University

tag: cell description

value: lymphoblastoid, International HapMap Project, Han Chinese in Beijing, China, treatment:Epstein-Barr Virus transformed

value: normal

tag: treatment

tag: treatment description

value: No special treatment or protocol applies

tag: antibody

value: Input

value: IgG-mus

value: Input signal from Normal Mouse IgG ChIP-seq.

value: Illumina 2.0, low confidence sequences excluded


title: Stanford_ChipSeq_GM12891_TNFa_NFKB_IgG-rab

tag: lab description

value: ChipSeq

value: Chromatin IP Sequencing

value: human

value: B-lymphocyte, lymphoblastoid, International HapMap Project, CEPH/Utah pedigree 1463, treatment:Epstein-Barr Virus transformed

tag: cell karyotype

tag: cell lineage

value: M

value: TNFa

value: human recombinant TNF-alpha from eBioscience [product# 14-8329-62] (Snyder)

value: NFKB

tag: antibody antibodydescription

value: Rabbit polyclonal. Antibody Target:NFKB

tag: antibody targetdescription

value: Epitope mapping at the C-terminus of NF-kappa-B p65 of human origin, recommended for detection of NFkB p65 of m, r and h origin by WB, IP, IF and ELISA

tag: antibody vendorname

value: Santa Cruz Biotech

tag: antibody vendorid

value: IgG-rab

value: Input signal from Normal Rabbit IgG ChIP-seq.

value: remapped from hg18, Data paired with GM12891_IgG_Control.


title: Stanford_ChipSeq_GM10847_TNFa_NFKB_IgG-rab

value: Stanford

value: Snyder - Stanford University

tag: datatype

tag: datatype description

tag: cell

tag: cell organism

value: lymphoblastoid, International HapMap Project, CEPH/Utah, treatment:Epstein-Barr Virus transformed

value: normal

value: mesoderm

value: F

tag: control

tag: controlid

value: remapped from hg18, Illumina 2.0, low confidence sequences excluded.  Data paired with GM10847_IgG_Control


title: Stanford_ChipSeq_GM18951_Pol2_IgG-mus

tag: lab

value: ChipSeq

value: Chromatin IP Sequencing

value: human

tag: cell description

value: lymphoblastoid, International HapMap Project, Japanese in Tokyo, Japan, treatment:Epstein-Barr Virus transformed

tag: cell sex

value: No special treatment or protocol applies

value: mouse monoclonal, clone 8WG16. Antibody Target:POL2

value: RNA Polymerase II

value: Covance

value: IgG-mus

tag: control description

value: Input signal from Normal Mouse IgG ChIP-seq.

tag: labversion

value: remapped from hg18, Illumina 2.0, low confidence sequences excluded.

tag: replicate


title: Stanford_ChipSeq_K562_c-Myc_IgG-rab

value: Stanford

tag: lab description

value: Snyder - Stanford University

value: leukemia, "The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises." - ATCC

tag: cell karyotype

value: cancer

tag: cell lineage

tag: treatment

tag: treatment description

tag: antibody

value: c-Myc

value: rabbit polyclonal to amino acids 1-262 of c-Myc human origin. Antibody Target:c-Myc

value: transcription factor; c-Myc-encoded proteins function in cell proliferation,differentiation and neoplastic disease

value: Santa Cruz Biotech

value: IgG-rab

value: Input signal from Normal Rabbit IgG ChIP-seq.


title: Stanford_ChipSeq_IMR90_CEBPB_IgG-rab

tag: datatype

value: ChipSeq

tag: datatype description

value: Chromatin IP Sequencing

value: human

value: fetal lung fibroblasts, newly promoted to tier 2:not in 2011 analysis

value: normal

value: endoderm

value: F

value: No special treatment or protocol applies

value: CEBPB

tag: antibody antibodydescription

value: Rabbit polyclonal IgG. Antibody Target:CEBPB

tag: antibody targetdescription

value: epitope mapping at the C-terminus of C/EBP-beta of rat origin

tag: antibody vendorname

tag: antibody vendorid


title: Stanford_ChipSeq_GM18505_Input_IgG-mus

tag: lab

value: Stanford

value: Snyder - Stanford University

tag: cell

tag: cell organism

tag: cell description

value: lymphoblastoid, International HapMap Project, Yoruba in Ibadan, Nigera, treatment:Epstein-Barr Virus transformed

value: mesoderm

value: Input

tag: antibody description

value: Control signal which may be subtracted from experimental raw signal before peaks are called.

tag: control

value: IgG-mus

value: Input signal from Normal Mouse IgG ChIP-seq.

tag: controlid

value: Illumina 2.0, low confidence sequences excluded


title: Stanford_ChipSeq_GM12878_Max_IgG-mus

tag: lab description

value: ChipSeq

value: Chromatin IP Sequencing

value: human

value: B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus

tag: cell karyotype

tag: cell lineage

tag: cell sex

value: Max

value: Rabbit polyclonal IgG, epitope mapping at the C-terminus of Max of human origin. Antibody Target:Max

value: The protein encoded by this gene is a member of the basic helix-loop-helix leucine zipper (bHLHZ) family of transcription factors. It is able to form homodimers and heterodimers with other family members, which include Mad, Mxi1 and Myc. Myc is an oncoprotein implicated in cell proliferation, differentiation and apoptosis. The homodimers and heterodimers compete for a common DNA target site (the E box) and rearrangement among these dimer forms provides a complex system of transcriptional regulation. Multiple alternatively spliced transcript variants have been described for this gene but the full-length nature for some of them is unknown (RefSeq).

value: Santa Cruz Biotech

tag: control description

tag: labversion

value: This replaces a previous dataset for the cell line/antibody which was under sequenced due to technical limits at the time.

tag: replicate


title: Stanford_ChipSeq_GM18505_Pol2_IgG-mus

value: Stanford

value: Snyder - Stanford University

tag: datatype

tag: datatype description

value: normal

value: F

tag: treatment

tag: treatment description

value: No special treatment or protocol applies

tag: antibody

tag: antibody antibodydescription

value: mouse monoclonal, clone 8WG16. Antibody Target:POL2

tag: antibody targetdescription

value: RNA Polymerase II

value: Covance

value: remapped from hg18, Illumina 2.0, low confidence sequences excluded. Data paired with GM18505_IgG_Control.


title: Stanford_ChipSeq_H1-hESC_Znf143_(16618-1-AP)_IgG-rab

tag: lab

value: ChipSeq

value: Chromatin IP Sequencing

tag: cell

tag: cell organism

tag: cell description

value: embryonic stem cells

value: inner cell mass

value: M

value: Rabbit polyclonal against human ZNF143 (amino acids 283-626)-6his fusion protein. Antibody Target:Znf143

value: Transcriptional activator. Activates the gene for selenocysteine tRNA (tRNAsec). Binds to the SPH motif of small nuclear RNA (snRNA) gene promoters. Participates to efficient U6 RNA polymerase III transcription via its interaction with CHD8

tag: antibody vendorname

value: Proteintech

tag: antibody vendorid

value: IgG-rab

value: Input signal from Normal Rabbit IgG ChIP-seq.


title: Stanford_ChipSeq_HepG2_Input_IgG-goat

value: Stanford

tag: lab description

value: Snyder - Stanford University

value: human

value: hepatocellular carcinoma

tag: cell karyotype

value: cancer

tag: cell lineage

value: endoderm

tag: cell sex

value: Input

tag: antibody description

value: Control signal which may be subtracted from experimental raw signal before peaks are called.

tag: control

value: IgG-goat

value: Input signal from Normal Goat IgG ChIP-seq.

tag: controlid


title: Stanford_ChipSeq_GM18526_Pol2_IgG-mus

tag: datatype

value: ChipSeq

tag: datatype description

value: Chromatin IP Sequencing

value: lymphoblastoid, International HapMap Project, Han Chinese in Beijing, China, treatment:Epstein-Barr Virus transformed

value: normal

value: mesoderm

value: F

tag: treatment

tag: treatment description

value: No special treatment or protocol applies

value: mouse monoclonal, clone 8WG16. Antibody Target:POL2

value: RNA Polymerase II

value: Covance

value: IgG-mus

tag: control description

value: Input signal from Normal Mouse IgG ChIP-seq.

tag: labversion

value: remapped from hg18, Illumina 2.0, low confidence sequences excluded. Data paired with GM12878_IgG_Control.

tag: replicate


title: Stanford_ChipSeq_GM18951_TNFa_NFKB_IgG-rab

tag: lab

value: Stanford

value: Snyder - Stanford University

tag: cell

tag: cell organism

value: human

tag: cell description

value: lymphoblastoid, International HapMap Project, Japanese in Tokyo, Japan, treatment:Epstein-Barr Virus transformed

value: TNFa

value: human recombinant TNF-alpha from eBioscience [product# 14-8329-62] (Snyder)

tag: antibody

value: NFKB

tag: antibody antibodydescription

value: Rabbit polyclonal. Antibody Target:NFKB

tag: antibody targetdescription

value: Epitope mapping at the C-terminus of NF-kappa-B p65 of human origin, recommended for detection of NFkB p65 of m, r and h origin by WB, IP, IF and ELISA

value: Santa Cruz Biotech

value: IgG-rab

value: Input signal from Normal Rabbit IgG ChIP-seq.

value: remapped from hg18, Illumina 2.0, low confidence sequences excluded.  Data paired with GM18951_IgG_Control.


title: Stanford_ChipSeq_IMR90_Input_IgG-rab

tag: lab description

value: ChipSeq

value: Chromatin IP Sequencing

value: fetal lung fibroblasts, newly promoted to tier 2:not in 2011 analysis

tag: cell karyotype

value: normal

tag: cell lineage

value: endoderm

tag: cell sex

value: F

value: No special treatment or protocol applies

value: Input

tag: antibody description

value: Control signal which may be subtracted from experimental raw signal before peaks are called.


title: Yale_ChipSeq_HEK293_Pol2_std

value: Yale

value: Snyder - Yale University

tag: datatype

tag: datatype description

value: human

value: embryonic kidney, cells contain Adenovirus 5 DNA (PMID:11967234)

value: mesoderm

value: U

tag: treatment

value: mouse monoclonal, clone 8WG16. Antibody Target:POL2

value: RNA Polymerase II

tag: antibody vendorname

value: Covance

tag: antibody vendorid

tag: control

value: std

value: Standard input signal for most experiments.

tag: controlid


title: Stanford_ChipSeq_GM15510_TNFa_NFKB_IgG-rab

tag: lab

value: Stanford

value: Snyder - Stanford University

value: ChipSeq

value: Chromatin IP Sequencing

tag: cell

tag: cell organism

value: lymphoblastoid NIGMS Human Genetic Cell Repository, DNA Polymorphism Discovery Resource Collection, treatment:Epstein-Barr Virus transformed

value: normal

value: TNFa

tag: treatment description

value: human recombinant TNF-alpha from eBioscience [product# 14-8329-62] (Snyder)

value: NFKB

value: Rabbit polyclonal. Antibody Target:NFKB

value: Epitope mapping at the C-terminus of NF-kappa-B p65 of human origin, recommended for detection of NFkB p65 of m, r and h origin by WB, IP, IF and ELISA

value: Santa Cruz Biotech

value: IgG-rab

tag: control description

value: Input signal from Normal Rabbit IgG ChIP-seq.

tag: labversion

value: remapped from hg18, Illumina 2.0, low confidence sequences excluded.  Data paired with GM15510_IgG_Control.

tag: replicate


title: Stanford_ChipSeq_K562_IFNa30_c-Jun_std

tag: lab description

value: human

tag: cell description

value: leukemia, "The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises." - ATCC

tag: cell karyotype

value: cancer

tag: cell lineage

value: mesoderm

value: F

value: 30 m of Interferon alpha (Snyder)

tag: antibody

value: c-Jun

tag: antibody antibodydescription

value: Rabbit polyclonal to amino acids 1-79 mapping at the N-terminus of c-Jun p39 of human origin. Antibody Target:c-Jun

tag: antibody targetdescription

value: Heterodimer of Fos and Jun constitute transcription factor AP1.  Proto-oncogene c-Jun is a leucine-zipper.

value: std


title: Yale_ChipSeq_HUVEC_Input_std

value: Yale

value: Snyder - Yale University

tag: datatype

value: ChipSeq

tag: datatype description

value: Chromatin IP Sequencing

value: HUVEC

value: umbilical vein endothelial cells

value: normal

tag: cell sex

value: U

tag: treatment

value: No special treatment or protocol applies

value: Input

tag: antibody description

value: Control signal which may be subtracted from experimental raw signal before peaks are called.

value: Standard input signal for most experiments.

value: remapped from hg18


title: Stanford_ChipSeq_GM18951_Input_IgG-mus

tag: lab

value: Stanford

value: Snyder - Stanford University

tag: cell

tag: cell organism

value: human

value: lymphoblastoid, International HapMap Project, Japanese in Tokyo, Japan, treatment:Epstein-Barr Virus transformed

value: mesoderm

value: F

tag: control

value: IgG-mus

value: Input signal from Normal Mouse IgG ChIP-seq.

tag: controlid

value: Illumina 2.0, low confidence sequences excluded


title: Stanford_ChipSeq_K562_MafF_(M8194)_IgG-rab

tag: lab description

value: ChipSeq

value: Chromatin IP Sequencing

value: leukemia, "The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises." - ATCC

value: cancer

tag: treatment description

value: Rabbit polyclonal. Raised against synthetic peptide corresponding to amino acids 147-163 of human MAFF. The immunizing peptide does not cross-react with other members of the family. Antibody Target:MafF

value: The protein encoded by this gene is a (bZIP) transcription factor that lacks a transactivation domain. It is known to bind the US-2 DNA element in the promoter of the oxytocin receptor (OTR) gene and most likely heterodimerizes with other leucine zipper-containing proteins to enhance expression of the OTR gene during term pregnancy. Can also form homodimers, and since it lacks a transactivation domain, the homodimer may act as a repressor of transcription. May also be involved in the cellular stress response.

tag: antibody vendorname

value: Sigma-Aldrich

tag: antibody vendorid

value: IgG-rab

tag: control description

value: Input signal from Normal Rabbit IgG ChIP-seq.

tag: replicate


title: Stanford_ChipSeq_K562_IFNg30_IRF1_std

value: Stanford

value: Snyder - Stanford University

tag: cell description

tag: cell karyotype

tag: cell lineage

value: Interferon gamma treatment - 30 minutes (Snyder)

tag: antibody

tag: antibody antibodydescription

value: IRF-1 (C-20) is an affinity purified rabbit polyclonal antibody raised against a peptide mapping at the C-terminus of IRF-1 of human origin. Antibody Target:IRF1

tag: antibody targetdescription

value: Interferon regulatory factor 1 is a member of the interferon regulatory transcription factor (IRF) family. IRF1 serves as an activator of interferons alpha and beta transcription and also functions as a transcription activator of genes induced by interferons alpha, beta, and gamma. IRF1 has been shown to play roles in regulating apoptosis and tumor suppression.

value: Santa Cruz Biotech

value: std

value: Standard input signal for most experiments.


title: Harvard_ChipSeq_GM12878_NF-YB_IgG-mus

tag: lab

value: Harvard

value: Struhl - Harvard University

tag: datatype

value: ChipSeq

tag: datatype description

value: human

value: B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus

value: normal

value: mesoderm

tag: cell sex

value: F

tag: treatment

value: No special treatment or protocol applies

value: NF-YB

value: Affinity purified rabbit polyclonal raised against recombinant full length human NF-YB. Antibody Target:NF-YB

value: NF-YB is the beta subunit of the trimeric NFY transcription factor complex that binds to the ubiquitous CCAAT motif

value: Donated by Dr. R. Mantovani, Universita degli Studi di Milano, Italy

value: missing

value: IgG-mus

value: Input signal from Normal Mouse IgG ChIP-seq.


title: Harvard_ChipSeq_HeLa-S3_NF-YA_IgG-rab

tag: lab description

value: Chromatin IP Sequencing

tag: cell

tag: cell organism

value: cervical carcinoma

value: cancer

value: ectoderm

value: NF-YA

value: Affinity purified rabbit polyclonal raised against amino acids 139-347 of recombinant human NF-YA. Antibody Target:NF-YA

value: NF-YA is the alpha subunit of the trimeric NFY transcription factor complex that binds to the ubiquitous CCAAT motif

tag: control

value: IgG-rab

value: Input signal from Normal Rabbit IgG ChIP-seq.

tag: controlid


title: USC_ChipSeq_K562_ZNF274_(M01)_UCDavis

value: USC

value: Farnham - University of Southern California

value: ChipSeq

value: human

value: leukemia, "The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises." - ATCC

value: mesoderm

value: F

tag: treatment description

value: No special treatment or protocol applies

value: Mouse monoclonal antibody raised against a partial recombinant ZNF274 (corresponding to amino acids 420-531 of the human ZNF274 protein). Antibody Target:ZNF274

value: ZNF274 is a zinc finger protein containing five C2H2-type zinc finger domains, two Kruppel-associated box A (KRABA) domains, and a leucine-rich SCAN domain. The encoded protein has been suggested to be a transcriptional repressor and interacts with the KAP1 corepressor complex.

tag: antibody vendorname

value: Abnova ZNF74

tag: antibody vendorid

value: UCDavis

tag: control description

value: Input library was prepared at UC Davis.

tag: replicate


title: Stanford_ChipSeq_IMR90_Pol2_IgG-rab

value: Stanford

value: Snyder - Stanford University

value: Chromatin IP Sequencing

tag: cell description

value: fetal lung fibroblasts, newly promoted to tier 2:not in 2011 analysis

tag: cell karyotype

value: normal

tag: cell lineage

value: endoderm

tag: antibody

tag: antibody antibodydescription

value: mouse monoclonal, clone 8WG16. Antibody Target:POL2

value: RNA Polymerase II

value: Covance


title: Stanford_ChipSeq_K562_CHD2_(AB68301)_IgG-rab

tag: lab

tag: datatype

value: ChipSeq

tag: datatype description

value: human

value: leukemia, "The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises." - ATCC

value: cancer

value: mesoderm

tag: cell sex

value: Rabbit polyclonal to CHD2 Synthetic peptide derived from within residues 1250 - 1350 of Human CHD2. Antibody Target:CHD2

tag: antibody targetdescription

value: CHD family of proteins are characterized by presence of chromo (chromatin organization modifier) domains and SNF2-related helicase/ATPase domains. CHD genes alter gene expression possibly by modification of chromatin structure thus altering access of the transcriptional apparatus to its chromosomal DNA template.

value: Abcam

value: IgG-rab

value: Input signal from Normal Rabbit IgG ChIP-seq.


title: Stanford_ChipSeq_H1-hESC_c-Myc_IgG-rab

value: Stanford

tag: lab description

value: Snyder - Stanford University

value: Chromatin IP Sequencing

tag: cell

tag: cell organism

value: embryonic stem cells

value: inner cell mass

value: M

tag: treatment

value: No special treatment or protocol applies

value: c-Myc

value: rabbit polyclonal to amino acids 1-262 of c-Myc human origin. Antibody Target:c-Myc

value: transcription factor; c-Myc-encoded proteins function in cell proliferation,differentiation and neoplastic disease

value: Santa Cruz Biotech

tag: control


title: Stanford_ChipSeq_HeLa-S3_p300_(SC-584)_IgG-rab

value: ChipSeq

value: human

value: cervical carcinoma

value: cancer

value: ectoderm

value: F

tag: treatment description

value: Rabbit polyclonal IgG, epitope mapping at the N-terminus of p300 of human origin. Antibody Target:P300

value: Encodes the adenovirus E1A-associated cellular p300 transcriptional co-activator protein. Functions as histone acetyltransferase and regulates transcription via chromatin remodeling. Acetylates all four core histones in nucleosomes. Mediates cAMP-gene regulation by binding specifically to phosphorylated CREB protein

tag: antibody vendorname

tag: antibody vendorid

tag: control description

tag: controlid


title: Stanford_ChipSeq_HeLa-S3_Mxi1_(AF4185)_IgG-rab

value: Stanford

value: Snyder - Stanford University

value: Chromatin IP Sequencing

tag: cell description

tag: cell karyotype

tag: cell lineage

tag: antibody

value: Goat IgG. Raised against E. coli-derived rhMxi1. Antibody Target:Mxi1

value: Transcriptional repressor. Binds with MAX to form recognize the core sequence 5'-CAC[GA]TG-3', antagonizes MYC transcriptional activity by competing for MAX

value: R&D Systems

value: IgG-rab

value: Input signal from Normal Rabbit IgG ChIP-seq.

tag: replicate


title: Stanford_ChipSeq_K562_Mxi1_(AF4185)_IgG-rab

tag: lab

tag: datatype

tag: datatype description

value: leukemia, "The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises." - ATCC

value: mesoderm

tag: cell sex

value: No special treatment or protocol applies

tag: antibody antibodydescription


title: Stanford_ChipSeq_K562_TBP_IgG-mus

tag: lab description

value: ChipSeq

tag: cell

tag: cell organism

value: human

tag: treatment

value: TBP

value: Mouse monoclonal. Immunogen is synthetic peptide conjugated to KLH derived from within residues 1 - 100 of HumanTATA binding protein TBP. Antibody Target:TBP

tag: antibody targetdescription

value: General transcription factor that functions at the core of the DNA-binding multiprotein factor TFIID. Binding of TFIID to the TATA box is the initial transcriptional step of the pre-initiation complex (PIC), playing a role in the activation of eukaryotic genes transcribed by RNA polymerase II. Component of the transcription factor SL1/TIF-IB complex, which is involved in the assembly of the PIC (preinitiation complex) during RNA polymerase I-dependent transcription.

value: abcam

value: IgG-mus

value: Input signal from Normal Mouse IgG ChIP-seq.


title: Stanford_ChipSeq_K562_IFNa6h_IRF1_std

value: Stanford

value: Snyder - Stanford University

value: Chromatin IP Sequencing

value: cancer

value: F

tag: treatment description

value: Interferon alpha treatment - 6 hours (Snyder)

value: IRF-1 (C-20) is an affinity purified rabbit polyclonal antibody raised against a peptide mapping at the C-terminus of IRF-1 of human origin. Antibody Target:IRF1

value: Interferon regulatory factor 1 is a member of the interferon regulatory transcription factor (IRF) family. IRF1 serves as an activator of interferons alpha and beta transcription and also functions as a transcription activator of genes induced by interferons alpha, beta, and gamma. IRF1 has been shown to play roles in regulating apoptosis and tumor suppression.

tag: antibody vendorname

value: Santa Cruz Biotech

tag: antibody vendorid

tag: control

value: std

tag: control description

value: Standard input signal for most experiments.


title: Stanford_ChipSeq_GM12878_WHIP_IgG-mus

value: ChipSeq

value: human

tag: cell description

value: B-lymphocyte, lymphoblastoid, International HapMap Project - CEPH/Utah - European Caucasion, Epstein-Barr Virus

tag: cell karyotype

value: normal

tag: cell lineage

value: mesoderm

value: No special treatment or protocol applies

tag: antibody

value: WHIP

value: Rabbit polyclonal; Immunogen:Synthetic peptide:SRESYDAPPTPSGAC conjugated to KLH, corresponding to amino acids 107-120 of Human WHIP. Antibody Target:WHIP

value: Interacts with the N-terminal portion of Werner protein containing the exonuclease domain, shows homology to replication factor C family proteins, and is conserved from E. coli to human. Studies in yeast suggest that this gene may influence the aging process. Functions as a modulator for initiation or reinitiation events during DNA polymerase delta-mediated DNA synthesis. Has an intrinsic ATPase activity that functions as a sensor of DNA damage or of arrested replication forks and regulates the extent of DNA synthesis.

value: Abcam

tag: controlid


title: Stanford_ChipSeq_K562_IFNg6h_STAT1_std

tag: lab

value: Stanford

value: Snyder - Stanford University

tag: datatype

tag: datatype description

value: Chromatin IP Sequencing

value: leukemia, "The continuous cell line K-562 was established by Lozzio and Lozzio from the pleural effusion of a 53-year-old female with chronic myelogenous leukemia in terminal blast crises." - ATCC

value: cancer

tag: cell sex

value: F

value: Interferon gamma treatment - 6 hours (Snyder)

value: rabbit polyclonal to STAT1 (alpha) p-91 (C-24). Antibody Target:STAT1

value: transcription factor, activated by interferon signalling

tag: labversion

value: low confidence sequences excluded

tag: replicate