The ORegAnno STAT1 lit project in PAZAR Help

Description

STAT1 literature-derived Binding Sites.

A set of transcription factor binding sites for STAT1, extracted from the ORegAnno database. These sites were collected from the scientific literature to serve as positive controls in support of the experimental determination of STAT1 binding sites by ChIP-TS (chromatin immunoprecipitation with tag sequencing by the Illumina 1G system, Bentley DR 2006, PMID: 17055251).
Robertson G, Hirst M, Bainbridge M, Bilenky M, Zhao Y, Zeng T, Pandoh P, Fichter K, Tam A, Ma K, Prabhu AL, Moksa M, Lee S, Mah D, Sa D, McDonald H, Delaney A, Theissen N, Bernier B, Griffith O, He A, Varhol R, Euskirchen G, Snyder M, Marra M and Jones SJM. (2007) Genome-wide profiles of STAT1 DNA association in HeLa S3 cells using chromatin immunoprecipitation and massively parallel sequencing. Nat Methods. [Epub ahead of print]

Statistics

Regulated genes (or markers): 28
Regulatory sequences (genomic): 37
Regulatory sequences (artificial): 0
Transcription factors: 1
Transcription factor profiles: 0
Annotated publications: 29

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Homo sapiens
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chromosome
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2',5'-oligoadenylate synthetase 1, 40/46kDa ENSG00000089127
adenosine deaminase, RNA-specific ENSG00000160710
CD40 molecule, TNF receptor superfamily member 5 ENSG00000101017
CD86 molecule ENSG00000114013
chemokine ligand 10 ENSG00000169245
chemokine ligand 2 ENSG00000108691
class II, major histocompatibility complex, transactivator ENSG00000179583
colony stimulating factor 1 ENSG00000184371
complement factor B ENSG00000204359
eukaryotic translation initiation factor 2-alpha kinase 2 ENSG00000055332
FBJ murine osteosarcoma viral oncogene homolog ENSG00000170345
Fc fragment of IgG, high affinity Ia, receptor ENSG00000150337
guanylate binding protein 1, interferon-inducible ENSG00000117228
indoleamine 2,3-dioxygenase 1 ENSG00000131203
intercellular adhesion molecule 1 ENSG00000090339
interferon induced transmembrane protein 1 ENSG00000185885
interferon regulatory factor 1 ENSG00000125347
interferon stimulated exonuclease gene 20kDa ENSG00000172183
interferon, alpha-inducible protein 6 ENSG00000126709
interferon-induced protein with tetratricopeptide repeats 1 ENSG00000185745
interleukin 6 signal transducer ENSG00000134352
ISG15 ubiquitin-like modifier ENSG00000187608
major histocompatibility complex, class I, E ENSG00000204592
major vault protein ENSG00000013364
myxovirus ENSG00000157601
nitric oxide synthase 2, inducible ENSG00000007171
serpin peptidase inhibitor, clade A , member 3 ENSG00000196136
tryptophanyl-tRNA synthetase ENSG00000140105
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STAT1_HUMAN ENST00000361099
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ADMC
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15688014
COMPILED
COMPUTATIONAL PREDICTION
DNASE I FOOTPRINTING
ELECTROPHORETIC MOBILITY SHIFT ASSAY (EMSA)::DIRECT GEL SHIFT
ELECTROPHORETIC MOBILITY SHIFT ASSAY (EMSA)::DIRECT GEL SHIFT WITH WESTERN BLOT DETECTION
ELECTROPHORETIC MOBILITY SHIFT ASSAY (EMSA)::GEL SHIFT COMPETITION
ELECTROPHORETIC MOBILITY SHIFT ASSAY (EMSA)::SUPERSHIFT
ELECTROPHORETIC MOBILITY SHIFT ASSAY (EMSA)::UNKNOWN
EMSA
EXPERT CURATED::LITERATURE DERIVED
GENE CO-EXPRESSION::CO-EXPRESSED GENES DETERMINED THROUGH REPORTER GENE EXPERIMENTS
IN-VIVO HUMAN CD4 ASSAY
MUTAGENESIS::EXONUCLEASE DIGESTION
MUTAGENESIS::EXONUCLEASE III DIGESTION
MUTAGENESIS::OLIGONUCLEOTIDE SYNTHESIS
MUTAGENESIS::PCR
MUTAGENESIS::RESTRICTION ENDONUCLEASE DIGESTION
MUTAGENESIS::SITE-DIRECTED
MUTAGENESIS::UNKNOWN
N/A
NA
PROTEIN BINDING ASSAY :: CHROMATIN IMMUNOPRECIPITATION WITH TAG SEQUENCING (CHIP-TS)
PROTEIN BINDING ASSAY::CHROMATIN IMMUNOPRECIPITATION (CHIP)
PROTEIN BINDING ASSAY::CHROMATIN IMMUNOPRECIPITATION WITH TAG SEQUENCING (CHIP-TS)
PROTEIN BINDING ASSAY::DNA-PROTEIN PRECIPITATION ASSAY
PROTEIN BINDING ASSAY::DNA-PROTEIN PRECIPITATION ASSAY WITH ELISA DETECTION
PROTEIN BINDING ASSAY::DNASE FOOTPRINTING ASSAY
PROTEIN BINDING ASSAY::DNASE FOOTPRINTING COMPETITION ASSAY
PROTEIN BINDING ASSAY::IN-VIVO FOOTPRINTING ASSAY
PROTEIN BINDING ASSAY::METHYLATION INTERFERENCE
PROTEIN BINDING ASSAY::METHYLATION INTERFERENCE ASSAY
PROTEIN BINDING ASSAY::UNKNOWN
PROTEIN BINDING ASSAY::WESTERN BLOT ASSAY
PROTEIN BINDING ASSAY::YEAST 1-HYBRID ASSAY
PROTEIN EXPRESSION ASSAY::ENZYME-LINKED IMMUNOSORBENT ASSAY (ELISA)
PROTEIN EXPRESSION ASSAY::INDIRECT IMMUNOFLUORESCENCE
PROTEIN EXPRESSION ASSAY::LUCIFERASE EXPRESSION ASSAY
PROTEIN EXPRESSION ASSAY::WESTERN BLOT ASSAY
REPORTER GENE ASSAY
REPORTER GENE ASSAY:: TRANSIENT TRANSFECTION GENE EXPRESSION ASSAY
REPORTER GENE ASSAY:: TRANSIENT TRANSFECTION GENE EXPRESSION ASSAY WITH ELISA DETECTION
REPORTER GENE ASSAY::BETA-GLOBIN EXPRESSION ASSAY
REPORTER GENE ASSAY::CHLORAMPHENICOL ACETYLTRANSFERASE (CAT) ASSAY
REPORTER GENE ASSAY::DUAL LUCIFERASE REPORTER GENE ASSAY
REPORTER GENE ASSAY::IN-VITRO VIRUS REPLICATION ASSAY
REPORTER GENE ASSAY::IN-VIVO CHLORAMPHENICOL ACETYLTRANSFERASE (CAT) ASSAY
REPORTER GENE ASSAY::IN-VIVO GENE EXPRESSION ASSAY
REPORTER GENE ASSAY::IN-VIVO GFP EXPRESSION ASSAY
REPORTER GENE ASSAY::IN-VIVO LACZ EXPRESSION ASSAY
REPORTER GENE ASSAY::IN-VIVO LUCIFERASE EXPRESSION ASSAY
REPORTER GENE ASSAY::RABBIT BETA-GLOBIN EXPRESSION ASSAY
REPORTER GENE ASSAY::SECRETED ALKALINE PHOSPHATASE (SEAP) ASSAY
REPORTER GENE ASSAY::SITE-SPECIFIC STABLE TRANSFECTION GFP ASSAY BY CRE-LOX RECOMBINATION
REPORTER GENE ASSAY::STABLE TRANSFECTION CAT ASSAY
REPORTER GENE ASSAY::STABLE TRANSFECTION DSRED ASSAY
REPORTER GENE ASSAY::STABLE TRANSFECTION LACZ ASSAY
REPORTER GENE ASSAY::STABLE TRANSFECTION LUCIFERASE ASSAY
REPORTER GENE ASSAY::STABLY INCORPORATED GFP TRANSGENE ASSAY
REPORTER GENE ASSAY::TARGETED IN-VIVO EXPRESSION ASSAY BY IN UTERO ELECTROPORATION
REPORTER GENE ASSAY::TARGETED IN-VIVO GENE EXPRESSION ASSAY BY NON-VIRAL INJECTION
REPORTER GENE ASSAY::TARGETED IN-VIVO GFP EXPRESSION ASSAY BY VIRAL INJECTION
REPORTER GENE ASSAY::TARGETED IN-VIVO LACZ EXPRESSION ASSAY BY VIRAL INJECTION
REPORTER GENE ASSAY::TRANSIENT TRANSFECTION GENE EXPRESSION ASSAY
REPORTER GENE ASSAY::TRANSIENT TRANSFECTION GFP ASSAY
REPORTER GENE ASSAY::TRANSIENT TRANSFECTION HUMAN GROWTH HORMONE ASSAY
REPORTER GENE ASSAY::TRANSIENT TRANSFECTION LACZ ASSAY
REPORTER GENE ASSAY::TRANSIENT TRANSFECTION LUCIFERASE ASSAY
REPORTER GENE ASSAY::UNKNOWN
REPORTER GENE ASSAY::VIRAL INFECTION LUCIFERASE ASSAY
RNA EXPRESSION ASSAY::IN-VITRO TRANSCRIPTION ASSAY WITH DETECTION BY PRIMER EXTENSION
RNA EXPRESSION ASSAY::NORTHERN BLOT
RNA EXPRESSION ASSAY::PRIMER EXTENSION ANALYSIS WITH POLY(A)+ RNA
RNA EXPRESSION ASSAY::REAL TIME PCR
RNA EXPRESSION ASSAY::REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION (RT-PCR)
RNA EXPRESSION ASSAY::RNASE PROTECTION ASSAY (RPA)
RNA EXPRESSION ASSAY::WHOLE-MOUNT IN SITU HYBRIDIZATION
RNA STABILITY ASSAY::RNA SYNTHESIS BLOCKING
SELEX
SEQUENCE CONSERVATION::CO-EXPRESSED GENE CONSERVATION
SEQUENCE CONSERVATION::CONSERVATION FOUND BY ALIGNMENT
SEQUENCE CONSERVATION::ORTHOLOGOUS GENE CONSERVATION
SITE-DIRECTED MUTAGENESIS
UNKNOWN::CHROMATIN IMMUNOPRECIPITATION (CHIP)
UNKNOWN::UNKNOWN
YEAST ONE-HYBRID
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