Gene Page:IRF1

Summary?
GeneID 3659
Symbol IRF1
Synonyms IRF-1|MAR
Description interferon regulatory factor 1
Reference MIM:147575|HGNC:HGNC:6116|Ensembl:ENSG00000125347|HPRD:00961|Vega:OTTHUMG00000059497
Gene type protein-coding
Map location 5q31.1
Pascal p-value 0.095
Sherlock p-value 0.963
Fetal beta -0.854
DMG 1 (# studies)
eGene Myers' cis & trans

Gene in Data Sources
Gene set name Method of gene set Description Info
CV:PGCnp Genome-wide Association Study GWAS
DMG:Jaffe_2016 Genome-wide DNA methylation analysis This dataset includes 2,104 probes/CpGs associated with SZ patients (n=108) compared to 136 controls at Bonferroni-adjusted P < 0.05. 1
GSMA_I Genome scan meta-analysis Psr: 0.0032

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

Probe Chromosome Position Nearest gene P (dis) Beta (dis) FDR (dis) Study
cg22594055 5 131832675 IRF1 2.02E-8 -0.009 6.99E-6 DMG:Jaffe_2016

@eQTL annotation

SNP ID Chromosome Position eGene Gene Entrez ID pvalue qvalue TSS distance eQTL type
rs1342707 chr1 147264296 IRF1 3659 0 trans
rs10495652 chr2 17139288 IRF1 3659 0.03 trans
rs6531271 chr2 17139932 IRF1 3659 0.03 trans
rs12620194 chr2 17148003 IRF1 3659 0.03 trans
rs277655 chr3 100044586 IRF1 3659 0.17 trans
rs6551878 chr4 65690588 IRF1 3659 0.04 trans
rs10516136 chr5 176381368 IRF1 3659 0.1 trans
rs9397692 chr6 154487314 IRF1 3659 0.07 trans
rs9384190 chr6 154524473 IRF1 3659 0.14 trans
rs1111835 chr13 79482717 IRF1 3659 0.11 trans

Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

Gene expression during devlopment (BrainCloud)

Footnote:
A total of 269 time points ploted, with n=38 fetal samples (x=1:38). Each triangle represents one time point.

Gene expression of temporal and spatial changes (BrainSpan)

Footnote:
SC: sub-cortical regions; SM: sensory-motor regions; FC: frontal cortex; and TP: temporal-parietal cortex
ST1: fetal (13 - 26 postconception weeks), ST2: early infancy to late childhood (4 months to 11 years), and ST3: adolescence to adulthood (13 - 23 years)
The bar shown representes the lower 25% and upper 25% of the expression distribution.

Top co-expressed genes in brain regions

Top 10 positively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
SELPLG 0.81 0.81
CSF1R 0.81 0.82
CYBB 0.79 0.75
P2RY13 0.79 0.70
APBB1IP 0.78 0.77
PTPRC 0.77 0.77
LAPTM5 0.77 0.77
CTSS 0.75 0.72
P2RY12 0.74 0.72
LPAR5 0.73 0.74
Top 10 negatively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
BCL7C -0.34 -0.41
RP9P -0.30 -0.41
SH2B2 -0.30 -0.30
AC132872.1 -0.29 -0.29
SNHG12 -0.28 -0.30
ST20 -0.28 -0.34
PPP1R14B -0.28 -0.37
NUDT8 -0.28 -0.23
FAM167B -0.28 -0.29
RPL23A -0.28 -0.34

Section III. Gene Ontology annotation

Molecular function GO term Evidence Neuro keywords PubMed ID
GO:0003700 transcription factor activity IEA -
GO:0043565 sequence-specific DNA binding IEA -
Biological process GO term Evidence Neuro keywords PubMed ID
GO:0006350 transcription IEA -
GO:0045944 positive regulation of transcription from RNA polymerase II promoter IEA -
GO:0045084 positive regulation of interleukin-12 biosynthetic process IEA -
GO:0045786 negative regulation of cell cycle IEA -
Cellular component GO term Evidence Neuro keywords PubMed ID
GO:0005634 nucleus IEA -

Section IV. Protein-protein interaction annotation

Interactors Aliases B Official full name B Experimental Source PubMed ID
CSNK2A1 CK2A1 | CKII casein kinase 2, alpha 1 polypeptide An unspecified isoform of CK2-alpha interacts with IRF-1 promoter. BIND 15893730
CSNK2B CK2B | CK2N | CSK2B | G5A | MGC138222 | MGC138224 casein kinase 2, beta polypeptide CK2-beta interacts with IRF-1 promoter. BIND 15893730
CTDP1 CCFDN | FCP1 CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) phosphatase, subunit 1 连续油管与IRF-1交互的一个未指明的同种型promoter. BIND 15893730
DR1 NC2 | NC2-BETA down-regulator of transcription 1, TBP-binding (negative cofactor 2) Dr1 interacts with IRF-1 promoter. BIND 15893730
DRAP1 NC2-alpha DR1-associated protein 1 (negative cofactor 2 alpha) DRAP1 interacts with IRF-1 promoter. BIND 15893730
ERCC3 BTF2 | GTF2H | RAD25 | TFIIH | XPB excision repair cross-complementing rodent repair deficiency, complementation group 3 (xeroderma pigmentosum group B complementing) TFIIH interacts with IRF-1 promoter. BIND 15893730
GTF2F1 BTF4 | RAP74 | TF2F1 | TFIIF general transcription factor IIF, polypeptide 1, 74kDa TFIIF interacts with IRF-1 promoter. BIND 15893730
HMGA1 HMG-R | HMGA1A | HMGIY | MGC12816 | MGC4242 | MGC4854 high mobility group AT-hook 1 - HPRD,BioGRID 10357819
IRF8 H-ICSBP | ICSBP | ICSBP1 | IRF-8 interferon regulatory factor 8 - HPRD,BioGRID 7768900|9742224
KAT2A GCN5 | GCN5L2 | MGC102791 | PCAF-b | hGCN5 K(lysine) acetyltransferase 2A Reconstituted Complex BioGRID 10022868
KAT2B CAF | P | P/CAF | PCAF K(lysine) acetyltransferase 2B - HPRD,BioGRID 10022868|11304541
MED23 CRSP130 | CRSP133 | CRSP3 | DKFZp434H0117 | DRIP130 | SUR2 mediator complex subunit 23 An unspecified isoform of MED23 interacts with IRF-1 promoter. BIND 15893730
NFKB1 DKFZp686C01211 | EBP-1 | KBF1 | MGC54151 | NF-kappa-B | NFKB-p105 | NFKB-p50 | p105 nuclear factor of kappa light polypeptide gene enhancer in B-cells 1 - HPRD 8746784
POLR2D HSRBP4 | HSRPB4 | RBP4 polymerase (RNA) II (DNA directed) polypeptide D Rbp4 interacts with IRF-1 promoter. BIND 15893730
POLR2D HSRBP4 | HSRPB4 | RBP4 polymerase (RNA) II (DNA directed) polypeptide D Rbp4 interacts with IRF-1. BIND 15893730
STAT1 DKFZp686B04100 | ISGF-3 | STAT91 signal transducer and activator of transcription 1, 91kDa - HPRD,BioGRID 10764778
SUB1 MGC102747 | P15 | PC4 | p14 SUB1 homolog (S. cerevisiae) PC4 interacts with IRF-1 promoter. BIND 15893730
TBP GTF2D | GTF2D1 | MGC117320 | MGC126054 | MGC126055 | SCA17 | TFIID TATA box binding protein TBP interacts with IRF-1 promoter. BIND 15893730


Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
PID TELOMERASE PATHWAY 68 48 All SZGR 2.0 genes in this pathway
PID REG GR PATHWAY 82 60 All SZGR 2.0 genes in this pathway
PID IFNG PATHWAY 40 34 All SZGR 2.0 genes in this pathway
PID IL6 7 PATHWAY 47 40 All SZGR 2.0 genes in this pathway
PID IL12 STAT4 PATHWAY 33 29 All SZGR 2.0 genes in this pathway
REACTOME TRAF6 MEDIATED IRF7 ACTIVATION 30 26 All SZGR 2.0 genes in this pathway
REACTOME因素参与巨核细胞培养MENT AND PLATELET PRODUCTION 132 101 All SZGR 2.0 genes in this pathway
REACTOME INTERFERON GAMMA SIGNALING 63 48 All SZGR 2.0 genes in this pathway
REACTOME INTERFERON ALPHA BETA SIGNALING 64 50 All SZGR 2.0 genes in this pathway
REACTOME INTERFERON SIGNALING 159 116 All SZGR 2.0 genes in this pathway
REACTOME RIG I MDA5 MEDIATED INDUCTION OF IFN ALPHA BETA PATHWAYS 73 57 All SZGR 2.0 genes in this pathway
REACTOME HEMOSTASIS 466 331 All SZGR 2.0 genes in this pathway
REACTOME INNATE IMMUNE SYSTEM 279 178 All SZGR 2.0 genes in this pathway
REACTOME IMMUNE SYSTEM 933 616 All SZGR 2.0 genes in this pathway
REACTOME CYTOKINE SIGNALING IN IMMUNE SYSTEM 270 204 All SZGR 2.0 genes in this pathway
BERTUCCI MEDULLARY VS DUCTAL BREAST CANCER UP 206 111 All SZGR 2.0 genes in this pathway
GARY CD5 TARGETS UP 473 314 All SZGR 2.0 genes in this pathway
RODRIGUES THYROID CARCINOMA DN 77 52 All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY SERUM DEPRIVATION UP 552 347 All SZGR 2.0 genes in this pathway
GRAESSMANN RESPONSE TO MC AND SERUM DEPRIVATION UP 211 136 All SZGR 2.0 genes in this pathway
BARIS THYROID CANCER DN 59 45 All SZGR 2.0 genes in this pathway
PEREZ TP53 TARGETS 1174 695 All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 XPCS UP 28 16 All SZGR 2.0 genes in this pathway
RASHI RESPONSE TO IONIZING RADIATION 2 127 92 All SZGR 2.0 genes in this pathway
RASHI NFKB1 TARGETS 19 18 All SZGR 2.0 genes in this pathway
SCHLOSSER SERUM RESPONSE UP 134 93 All SZGR 2.0 genes in this pathway
BOWIE RESPONSE TO EXTRACELLULAR MATRIX 17 11 All SZGR 2.0 genes in this pathway
BOWIE RESPONSE TO TAMOXIFEN 18 10 All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 UP 309 199 All SZGR 2.0 genes in this pathway
YAN ESCAPE FROM ANOIKIS 24 19 All SZGR 2.0 genes in this pathway
SASAI RESISTANCE TO NEOPLASTIC TRANSFROMATION 50 31 All SZGR 2.0 genes in this pathway
NUYTTEN EZH2 TARGETS UP 1037 673 All SZGR 2.0 genes in this pathway
BUYTAERT PHOTODYNAMIC THERAPY STRESS UP 811 508 All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 48HR DN 428 306 All SZGR 2.0 genes in this pathway
BENPORATH ES CORE NINE CORRELATED 100 68 All SZGR 2.0 genes in this pathway
SHIN B CELL LYMPHOMA CLUSTER 1 13 11 All SZGR 2.0 genes in this pathway
ZHANG RESPONSE TO IKK INHIBITOR AND TNF UP 223 140 All SZGR 2.0 genes in this pathway
GRANDVAUX IFN RESPONSE NOT VIA IRF3 14 10 All SZGR 2.0 genes in this pathway
DER IFN ALPHA RESPONSE UP 74 48 All SZGR 2.0 genes in this pathway
RADAEVA RESPONSE TO IFNA1 UP 52 40 All SZGR 2.0 genes in this pathway
DER IFN BETA RESPONSE UP 102 67 All SZGR 2.0 genes in this pathway
BROCKE APOPTOSIS REVERSED BY IL6 144 98 All SZGR 2.0 genes in this pathway
DER IFN GAMMA RESPONSE UP 71 45 All SZGR 2.0 genes in this pathway
SANSOM APC TARGETS DN 366 238 All SZGR 2.0 genes in this pathway
ABBUD LIF SIGNALING 1 UP 46 29 All SZGR 2.0 genes in this pathway
ZHAN V2 LATE DIFFERENTIATION GENES 45 34 All SZGR 2.0 genes in this pathway
NATSUME RESPONSE TO INTERFERON BETA UP 71 49 All SZGR 2.0 genes in this pathway
JIANG VHL TARGETS 138 91 All SZGR 2.0 genes in this pathway
ZHU CMV ALL UP 120 89 All SZGR 2.0 genes in this pathway
GEISS RESPONSE TO DSRNA UP 38 29 All SZGR 2.0 genes in this pathway
HEDENFALK BREAST CANCER BRCA1 VS BRCA2 163 113 All SZGR 2.0 genes in this pathway
ZHU CMV 24 HR UP 93 65 All SZGR 2.0 genes in this pathway
BURTON ADIPOGENESIS 11 57 40 All SZGR 2.0 genes in this pathway
WALLACE PROSTATE CANCER RACE UP 299 167 All SZGR 2.0 genes in this pathway
ACEVEDO LIVER CANCER DN 540 340 All SZGR 2.0 genes in this pathway
MITSIADES RESPONSE TO APLIDIN UP 439 257 All SZGR 2.0 genes in this pathway
BOQUEST STEM CELL CULTURED VS FRESH UP 425 298 All SZGR 2.0 genes in this pathway
WEST ADRENOCORTICAL TUMOR DN 546 362 All SZGR 2.0 genes in this pathway
QI PLASMACYTOMA UP 259 185 All SZGR 2.0 genes in this pathway
ISHIKAWA STING SIGNALING 8 6 All SZGR 2.0 genes in this pathway
FERRARI RESPONSE TO FENRETINIDE UP 22 16 All SZGR 2.0 genes in this pathway
ICHIBA GRAFT VERSUS HOST DISEASE D7 UP 107 67 All SZGR 2.0 genes in this pathway
PARK TRETINOIN RESPONSE AND PML RARA FUSION 30 21 All SZGR 2.0 genes in this pathway
ZHANG INTERFERON RESPONSE 23 14 All SZGR 2.0 genes in this pathway
HINATA NFKB TARGETS KERATINOCYTE UP 91 63 All SZGR 2.0 genes in this pathway
HINATA NFKB TARGETS FIBROBLAST UP 84 60 All SZGR 2.0 genes in this pathway
LIU VAV3 PROSTATE CARCINOGENESIS UP 89 61 All SZGR 2.0 genes in this pathway
WORSCHECH TUMOR EVASION AND TOLEROGENICITY DN 14 11 All SZGR 2.0 genes in this pathway
HOSHIDA LIVER CANCER SUBCLASS S1 237 159 All SZGR 2.0 genes in this pathway
ZHAN MULTIPLE MYELOMA LB DN 44 23 All SZGR 2.0 genes in this pathway
TIAN TNF SIGNALING VIA NFKB 28 21 All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 2HR UP 39 30 All SZGR 2.0 genes in this pathway
MARTENS BOUND BY PML RARA FUSION 456 287 All SZGR 2.0 genes in this pathway
MARTENS TRETINOIN RESPONSE UP 857 456 All SZGR 2.0 genes in this pathway
KIM GLIS2 TARGETS UP 84 61 All SZGR 2.0 genes in this pathway
FEVR CTNNB1 TARGETS UP 682 433 All SZGR 2.0 genes in this pathway
KRIEG KDM3A TARGETS NOT HYPOXIA 208 107 All SZGR 2.0 genes in this pathway
ALFANO MYC TARGETS 239 156 All SZGR 2.0 genes in this pathway
PHONG TNF TARGETS UP 63 43 All SZGR 2.0 genes in this pathway
PHONG TNF RESPONSE NOT VIA P38 337 236 All SZGR 2.0 genes in this pathway
GHANDHI DIRECT IRRADIATION DN 33 23 All SZGR 2.0 genes in this pathway
ZWANG CLASS 1 TRANSIENTLY INDUCED BY EGF 516 308 All SZGR 2.0 genes in this pathway
ZWANG EGF INTERVAL DN 214 124 All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA family Target position miRNA ID miRNA seq
UTR start UTR end Match method
miR-124/506 680 686 m8 hsa-miR-506 UAAGGCACCCUUCUGAGUAGA
hsa-miR-124brain UAAGGCACGCGGUGAAUGCC
miR-130/301 410 417 1A,m8 hsa-miR-130abrain CAGUGCAAUGUUAAAAGGGCAU
hsa-miR-301 CAGUGCAAUAGUAUUGUCAAAGC
hsa-miR-130bbrain CAGUGCAAUGAUGAAAGGGCAU
hsa-miR-454-3p UAGUGCAAUAUUGCUUAUAGGGUUU
miR-17-5p/20/93.mr/106/519.d 589 595 m8 hsa-miR-17-5p CAAAGUGCUUACAGUGCAGGUAGU
hsa-miR-20abrain UAAAGUGCUUAUAGUGCAGGUAG
hsa-miR-106a AAAAGUGCUUACAGUGCAGGUAGC
hsa-miR-106bSZ UAAAGUGCUGACAGUGCAGAU
hsa-miR-20bSZ CAAAGUGCUCAUAGUGCAGGUAG
hsa-miR-519d CAAAGUGCCUCCCUUUAGAGUGU
miR-23 487 494 1A,m8 hsa-miR-23abrain AUCACAUUGCCAGGGAUUUCC
hsa-miR-23bbrain AUCACAUUGCCAGGGAUUACC
miR-323 487 493 1A hsa-miR-323brain GCACAUUACACGGUCGACCUCU
miR-383 618 625 1A,m8 hsa-miR-383brain AGAUCAGAAGGUGAUUGUGGCU