Gene Page: HDAC3
Summary ?
GeneID | 8841 |
Symbol | HDAC3 |
Synonyms | HD3|RPD3|RPD3-2 |
Description | histone deacetylase 3 |
Reference | MIM:605166|HGNC:HGNC:4854|Ensembl:ENSG00000171720|HPRD:08950|Vega:OTTHUMG00000129629 |
Gene type | protein-coding |
Map location | 5q31 |
Pascal p-value | 0.45 |
Sherlock p-value | 0.956 |
Fetal beta | 0.498 |
Support | Chromatin Remodeling Genes |
Gene in Data Sources
Gene set name | Method of gene set | Description | Info |
---|---|---|---|
PMID:cooccur | High-throughput literature-search | Systematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included. | |
GSMA_I | Genome scan meta-analysis | Psr: 0.0032 | |
Literature | High-throughput literature-search | Co-occurance with Schizophrenia keywords: schizophrenia,schizophrenic,schizophrenias | Click to show details |
Section I. Genetics and epigenetics annotation
Section II. Transcriptome annotation
General gene expression (GTEx)
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.
No co-expressed genes in brain regions
Section III. Gene Ontology annotation
Molecular function | GO term | Evidence | Neuro keywords | PubMed ID |
---|---|---|---|---|
GO:0004407 | histone deacetylase activity | TAS | 12711221 | |
GO:0016787 | hydrolase activity | IEA | - | |
GO:0008134 | transcription factor binding | TAS | 12711221 | |
Biological process | GO term | Evidence | Neuro keywords | PubMed ID |
GO:0006355 | regulation of transcription, DNA-dependent | IEA | - | |
GO:0006350 | transcription | IEA | - | |
GO:0006916 | anti-apoptosis | TAS | 10777477 | |
GO:0016568 | chromatin modification | TAS | 12711221 | |
GO:0016575 | histone deacetylation | IEA | - | |
Cellular component | GO term | Evidence | Neuro keywords | PubMed ID |
GO:0000118 | histone deacetylase complex | TAS | 12711221 | |
GO:0005634 | nucleus | TAS | 12711221 | |
GO:0005737 | cytoplasm | TAS | 12711221 |
Section IV. Protein-protein interaction annotation
Interactors | Aliases B | Official full name B | Experimental | Source | PubMed ID |
---|---|---|---|---|---|
ANKRD11 | ANCO-1 | LZ16 | T13 | ankyrin repeat domain 11 | Affinity Capture-Western Reconstituted Complex | BioGRID | 15184363 |
ANKRD11 | ANCO-1 | LZ16 | T13 | ankyrin repeat domain 11 | ANCO-1 interacts with HDAC3. This interaction was modeled on a demonstrated interaction between human ANCO-1 and HDAC3 from an unspecified species. | BIND | 15184363 |
AR | AIS | DHTR | HUMARA | KD | NR3C4 | SBMA | SMAX1 | TFM | androgen receptor | Reconstituted Complex | BioGRID | 12943985 |
ARID4A | RBBP1 | RBP-1 | RBP1 | AT rich interactive domain 4A (RBP1-like) | - | HPRD | 10490602 |
BCL3 | BCL4 | D19S37 | B-cell CLL/lymphoma 3 | HDAC3 interacts with BCL-3. | BIND | 15469820 |
BCOR | ANOP2 | FLJ20285 | FLJ38041 | KIAA1575 | MAA2 | MCOPS2 | MGC131961 | MGC71031 | BCL6 co-repressor | Affinity Capture-Western | BioGRID | 10898795 |
BIRC3 | AIP1 | API2 | CIAP2 | HAIP1 | HIAP1 | MALT2 | MIHC | RNF49 | baculoviral IAP repeat-containing 3 | The cIAP-2 promoter interacts with HDAC3. | BIND | 15494311 |
CBFA2T3 | ETO2 | MTG16 | MTGR2 | ZMYND4 | core-binding factor, runt domain, alpha subunit 2; translocated to, 3 | - | HPRD,BioGRID | 12242670 |
CCND1 | BCL1 | D11S287E | PRAD1 | U21B31 | cyclin D1 | Affinity Capture-Western | BioGRID | 12048199 |15558026 |
CCT5 | CCT-epsilon | CCTE | KIAA0098 | TCP-1-epsilon | chaperonin containing TCP1, subunit 5 (epsilon) | - | HPRD,BioGRID | 12502735 |
CSNK2A1 | CK2A1 | CKII | casein kinase 2, alpha 1 polypeptide | CSNK2A1 (CK2) phosphorylates HDAC3. | BIND | 15805470 |
CTBP1 | BARS | MGC104684 | C-terminal binding protein 1 | Reconstituted Complex | BioGRID | 11022042 |
DAXX | BING2 | DAP6 | EAP1 | MGC126245 | MGC126246 | death-domain associated protein | Far Western | BioGRID | 10669754 |
GATA1 | ERYF1 | GF-1 | GF1 | NFE1 | GATA binding protein 1 (globin transcription factor 1) | Affinity Capture-Western Reconstituted Complex | BioGRID | 14668799 |
GATA2 | MGC2306 | NFE1B | GATA binding protein 2 | - | HPRD,BioGRID | 11567998 |
GPS2 | AMF-1 | MGC104294 | MGC119287 | MGC119288 | MGC119289 | G protein pathway suppressor 2 | Affinity Capture-MS Affinity Capture-Western | BioGRID | 11931768 |
GTF2I | BAP-135 | BAP135 | BTKAP1 | DIWS | FLJ38776 | FLJ56355 | IB291 | SPIN | TFII-I | WBS | WBSCR6 | general transcription factor II, i | HDAC3 interacts with TFII-I. This interaction was modeled on a demonstrated interaction between HDAC3 and TFII-I isoforms both from unspecified species. | BIND | 12239342 |
GTF2I | BAP-135 | BAP135 | BTKAP1 | DIWS | FLJ38776 | FLJ56355 | IB291 | SPIN | TFII-I | WBS | WBSCR6 | general transcription factor II, i | - | HPRD,BioGRID | 12239342 |12393887 |
GTF2I | BAP-135 | BAP135 | BTKAP1 | DIWS | FLJ38776 | FLJ56355 | IB291 | SPIN | TFII-I | WBS | WBSCR6 | general transcription factor II, i | - | HPRD | 12393887 |
GTF2IRD1 | BEN | CREAM1 | GTF3 | MUSTRD1 | RBAP2 | WBS | WBSCR11 | WBSCR12 | hMusTRD1alpha1 | GTF2I repeat domain containing 1 | - | HPRD,BioGRID | 12239342 |
GTF2IRD1 | BEN | CREAM1 | GTF3 | MUSTRD1 | RBAP2 | WBS | WBSCR11 | WBSCR12 | hMusTRD1alpha1 | GTF2I repeat domain containing 1 | HDAC3 interacts with hMusTRD1. This interaction was modeled on a demonstrated interaction between HDAC3 from an unspecified species and human hMusTRD1. | BIND | 12239342 |
HDAC1 | DKFZp686H12203 | GON-10 | HD1 | RPD3 | RPD3L1 | histone deacetylase 1 | - | HPRD | 10944117 |11302704 |
HDAC10 | DKFZp761B039 | MGC149722 | histone deacetylase 10 | Affinity Capture-Western | BioGRID | 11861901 |
HDAC3 | HD3 | RPD3 | RPD3-2 | histone deacetylase 3 | Affinity Capture-Western Reconstituted Complex | BioGRID | 11779848 |
HDAC4 | HA6116 | HD4 | HDAC-A | HDACA | KIAA0288 | histone deacetylase 4 | - | HPRD | 11804585 |
HDAC4 | HA6116 | HD4 | HDAC-A | HDACA | KIAA0288 | histone deacetylase 4 | - | HPRD,BioGRID | 11466315 |
HDAC5 | FLJ90614 | HD5 | NY-CO-9 | histone deacetylase 5 | - | HPRD,BioGRID | 11804585 |
HDAC5 | FLJ90614 | HD5 | NY-CO-9 | histone deacetylase 5 | - | HPRD | 11466315 |
HDAC7 | DKFZp586J0917 | FLJ99588 | HD7A | HDAC7A | histone deacetylase 7 | Affinity Capture-Western Reconstituted Complex | BioGRID | 11466315 |
HDAC9 | DKFZp779K1053 | HD7 | HDAC | HDAC7 | HDAC7B | HDAC9B | HDAC9FL | HDRP | KIAA0744 | MITR | histone deacetylase 9 | An unspecified isoform of HDAC9 (MITR) interacts with HDAC3. This interaction was modelled on a demonstrated interaction between an unspecified isoform of human HDAC9 and HDAC3 from an unspecified species. | BIND | 15711539 |
HDAC9 | DKFZp779K1053 | HD7 | HDAC | HDAC7 | HDAC7B | HDAC9B | HDAC9FL | HDRP | KIAA0744 | MITR | histone deacetylase 9 | - | HPRD,BioGRID | 10655483 |
HIF1A | HIF-1alpha | HIF1 | HIF1-ALPHA | MOP1 | PASD8 | hypoxia-inducible factor 1, alpha subunit (basic helix-loop-helix transcription factor) | Reconstituted Complex | BioGRID | 11641274 |
HIF1AN | DKFZp762F1811 | FIH1 | FLJ20615 | FLJ22027 | hypoxia-inducible factor 1, alpha subunit inhibitor | Reconstituted Complex | BioGRID | 11641274 |
HR | ALUNC | AU | HSA277165 | hairless homolog (mouse) | Affinity Capture-Western | BioGRID | 11641275 |
HSPA4 | APG-2 | HS24/P52 | MGC131852 | RY | hsp70 | hsp70RY | heat shock 70kDa protein 4 | - | HPRD,BioGRID | 11777905 |
HSPA8 | HSC54 | HSC70 | HSC71 | HSP71 | HSP73 | HSPA10 | LAP1 | MGC131511 | MGC29929 | NIP71 | heat shock 70kDa protein 8 | - | HPRD,BioGRID | 12502735 |
IKZF1 | Hs.54452 | IK1 | IKAROS | LYF1 | PRO0758 | ZNFN1A1 | hIk-1 | IKAROS family zinc finger 1 (Ikaros) | Affinity Capture-Western | BioGRID | 12015313 |
IL8 | CXCL8 | GCP-1 | GCP1 | LECT | LUCT | LYNAP | MDNCF | MONAP | NAF | NAP-1 | NAP1 | interleukin 8 | The IL-8 promoter interacts with HDAC3. | BIND | 15494311 |
JUN | AP-1 | AP1 | c-Jun | jun oncogene | - | HPRD,BioGRID | 12853483 |
MAP3K7IP2 | FLJ21885 | KIAA0733 | TAB2 | mitogen-activated protein kinase kinase kinase 7 interacting protein 2 | - | HPRD,BioGRID | 12150997 |
MAPK11 | P38B | P38BETA2 | PRKM11 | SAPK2 | SAPK2B | p38-2 | p38Beta | mitogen-activated protein kinase 11 | - | HPRD,BioGRID | 15356147 |
NCOR1 | KIAA1047 | MGC104216 | N-CoR | TRAC1 | hCIT529I10 | hN-CoR | nuclear receptor co-repressor 1 | Affinity Capture-MS Affinity Capture-Western Co-fractionation Co-purification Reconstituted Complex Two-hybrid | BioGRID | 10944117 |11013263 |11466315 |11804585 |11931768 |12628926 |14527417 |
NCOR1 | KIAA1047 | MGC104216 | N-CoR | TRAC1 | hCIT529I10 | hN-CoR | nuclear receptor co-repressor 1 | N-CoR interacts with HDAC3. | BIND | 12628926 |
NCOR1 | KIAA1047 | MGC104216 | N-CoR | TRAC1 | hCIT529I10 | hN-CoR | nuclear receptor co-repressor 1 | - | HPRD | 10944117 |11509652 |
NCOR2 | CTG26 | SMRT | SMRTE | SMRTE-tau | TNRC14 | TRAC-1 | TRAC1 | nuclear receptor co-repressor 2 | Affinity Capture-MS Affinity Capture-Western Co-fractionation Co-purification Reconstituted Complex | BioGRID | 10809664 |10944117 |11013263 |11804585 |12502735 |12628926 |14527417 |
NFKBIA | IKBA | MAD-3 | NFKBI | nuclear factor of kappa light polypeptide gene enhancer in B-cells inhibitor, alpha | HDAC3 interacts with I-kappa-B-alpha. | BIND | 12972430 |
NR2C1 | TR2 | nuclear receptor subfamily 2, group C, member 1 | - | HPRD,BioGRID | 14521922 |
NR2C2 | TAK1 | TR2R1 | TR4 | hTAK1 | nuclear receptor subfamily 2, group C, member 2 | Reconstituted Complex | BioGRID | 12943985 |
PML | MYL | PP8675 | RNF71 | TRIM19 | promyelocytic leukemia | Affinity Capture-Western Reconstituted Complex | BioGRID | 11259576 |
PPARD | FAAR | MGC3931 | NR1C2 | NUC1 | NUCI | NUCII | PPAR-beta | PPARB | peroxisome proliferator-activated receptor delta | Affinity Capture-Western Reconstituted Complex | BioGRID | 11867749 |12943985 |
PPARG | NR1C3 | PPARG1 | PPARG2 | PPARgamma | peroxisome proliferator-activated receptor gamma | - | HPRD,BioGRID | 12479814 |
PPP4C | PP4 | PPH3 | PPX | protein phosphatase 4 (formerly X), catalytic subunit | PPP4C (PP4C) interacts with HDAC3. | BIND | 15805470 |
PPP4R1 | PP4(Rmeg) | PP4R1 | protein phosphatase 4, regulatory subunit 1 | PPP4R1 (PP4R1) interacts with HDAC3. | BIND | 15805470 |
RARA | NR1B1 | RAR | retinoic acid receptor, alpha | Reconstituted Complex | BioGRID | 12943985 |
RB1 | OSRC | RB | p105-Rb | pRb | pp110 | retinoblastoma 1 | - | HPRD,BioGRID | 12479814 |
RBBP4 | NURF55 | RBAP48 | retinoblastoma binding protein 4 | - | HPRD | 11777905 |
RBBP4 | NURF55 | RBAP48 | retinoblastoma binding protein 4 | Reconstituted Complex | BioGRID | 11470869 |
RBL1 | CP107 | MGC40006 | PRB1 | p107 | retinoblastoma-like 1 (p107) | Affinity Capture-Western | BioGRID | 10490602 |
RELA | MGC131774 | NFKB3 | p65 | v-rel reticuloendotheliosis viral oncogene homolog A (avian) | Affinity Capture-Western | BioGRID | 11533489 |
RUNX1T1 | AML1T1 | CBFA2T1 | CDR | ETO | MGC2796 | MTG8 | MTG8b | ZMYND2 | runt-related transcription factor 1; translocated to, 1 (cyclin D-related) | Affinity Capture-Western | BioGRID | 11533236 |
RUNX1T1 | AML1T1 | CBFA2T1 | CDR | ETO | MGC2796 | MTG8 | MTG8b | ZMYND2 | runt-related transcription factor 1; translocated to, 1 (cyclin D-related) | ETO interacts with HDAC3. | BIND | 15333839 |
RUNX2 | AML3 | CBFA1 | CCD | CCD1 | MGC120022 | MGC120023 | OSF2 | PEA2aA | PEBP2A1 | PEBP2A2 | PEBP2aA | PEBP2aA1 | runt-related transcription factor 2 | Affinity Capture-Western Reconstituted Complex | BioGRID | 15292260 |
RXRA | FLJ00280 | FLJ00318 | FLJ16020 | FLJ16733 | MGC102720 | NR2B1 | retinoid X receptor, alpha | Reconstituted Complex | BioGRID | 12943985 |
SF3B1 | PRP10 | PRPF10 | SAP155 | SF3b155 | splicing factor 3b, subunit 1, 155kDa | Affinity Capture-MS | BioGRID | 17353931 |
SIN3A | DKFZp434K2235 | FLJ90319 | KIAA0700 | SIN3 homolog A, transcription regulator (yeast) | - | HPRD | 10944117 |
SMARCA4 | BAF190 | BRG1 | FLJ39786 | SNF2 | SNF2-BETA | SNF2L4 | SNF2LB | SWI2 | hSNF2b | SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4 | - | HPRD | 10944117 |
STAT3 | APRF | FLJ20882 | HIES | MGC16063 | signal transducer and activator of transcription 3 (acute-phase response factor) | Stat3 interacts with HDAC3. | BIND | 15653507 |
SUV39H1 | KMT1A | MG44 | SUV39H | suppressor of variegation 3-9 homolog 1 (Drosophila) | Affinity Capture-Western Reconstituted Complex | BioGRID | 11788710 |
TBL1X | EBI | SMAP55 | TBL1 | transducin (beta)-like 1X-linked | Affinity Capture-MS Affinity Capture-Western Reconstituted Complex | BioGRID | 10809664 |11931768 |
TBL1X | EBI | SMAP55 | TBL1 | transducin (beta)-like 1X-linked | HDAC3 interacts with TBL1. | BIND | 12628926 |
TBL1X | EBI | SMAP55 | TBL1 | transducin (beta)-like 1X-linked | - | HPRD | 10944117 |11931768 |
TBL1XR1 | C21 | DC42 | FLJ12894 | IRA1 | TBLR1 | transducin (beta)-like 1 X-linked receptor 1 | Affinity Capture-MS | BioGRID | 11931768 |
TCP1 | CCT-alpha | CCT1 | CCTa | D6S230E | TCP-1-alpha | t-complex 1 | Affinity Capture-Western Reconstituted Complex | BioGRID | 12502735 |
THRB | ERBA-BETA | ERBA2 | GRTH | MGC126109 | MGC126110 | NR1A2 | PRTH | THR1 | THRB1 | THRB2 | thyroid hormone receptor, beta (erythroblastic leukemia viral (v-erb-a) oncogene homolog 2, avian) | - | HPRD | 10944117 |
TNFSF10 | APO2L | Apo-2L | CD253 | TL2 | TRAIL | tumor necrosis factor (ligand) superfamily, member 10 | HDAC3 interacts with the TNFSF10 promoter. | BIND | 15619633 |
VHL | HRCA1 | RCA1 | VHL1 | von Hippel-Lindau tumor suppressor | Reconstituted Complex | BioGRID | 11641274 |
XPO1 | CRM1 | DKFZp686B1823 | exportin 1 (CRM1 homolog, yeast) | - | HPRD,BioGRID | 11779848 |
YY1 | DELTA | INO80S | NF-E1 | UCRBP | YIN-YANG-1 | YY1 transcription factor | - | HPRD,BioGRID | 9346952 |
ZBTB16 | PLZF | ZNF145 | zinc finger and BTB domain containing 16 | Reconstituted Complex | BioGRID | 15467736 |
ZBTB33 | ZNF-kaiso | ZNF348 | zinc finger and BTB domain containing 33 | Affinity Capture-MS Affinity Capture-Western | BioGRID | 14527417 |
Section V. Pathway annotation
Pathway name | Pathway size | # SZGR 2.0 genes in pathway | Info |
---|---|---|---|
BIOCARTA RELA PATHWAY | 16 | 12 | All SZGR 2.0 genes in this pathway |
BIOCARTA CARM ER PATHWAY | 35 | 27 | All SZGR 2.0 genes in this pathway |
BIOCARTA RARRXR PATHWAY | 15 | 9 | All SZGR 2.0 genes in this pathway |
PID HDAC CLASSII PATHWAY | 34 | 27 | All SZGR 2.0 genes in this pathway |
PID HDAC CLASSI PATHWAY | 66 | 50 | All SZGR 2.0 genes in this pathway |
PID RETINOIC ACID PATHWAY | 30 | 23 | All SZGR 2.0 genes in this pathway |
PID MYC REPRESS PATHWAY | 63 | 52 | All SZGR 2.0 genes in this pathway |
PID RB 1PATHWAY | 65 | 46 | All SZGR 2.0 genes in this pathway |
REACTOME SIGNALLING BY NGF | 217 | 167 | All SZGR 2.0 genes in this pathway |
REACTOME DEVELOPMENTAL BIOLOGY | 396 | 292 | All SZGR 2.0 genes in this pathway |
REACTOME BMAL1 CLOCK NPAS2 ACTIVATES CIRCADIAN EXPRESSION | 36 | 27 | All SZGR 2.0 genes in this pathway |
REACTOME PPARA ACTIVATES GENE EXPRESSION | 104 | 72 | All SZGR 2.0 genes in this pathway |
REACTOME RORA ACTIVATES CIRCADIAN EXPRESSION | 24 | 17 | All SZGR 2.0 genes in this pathway |
REACTOME NOTCH1 INTRACELLULAR DOMAIN REGULATES TRANSCRIPTION | 46 | 28 | All SZGR 2.0 genes in this pathway |
REACTOME CIRCADIAN REPRESSION OF EXPRESSION BY REV ERBA | 23 | 16 | All SZGR 2.0 genes in this pathway |
REACTOME SIGNALING BY NOTCH1 | 70 | 46 | All SZGR 2.0 genes in this pathway |
REACTOME P75 NTR RECEPTOR MEDIATED SIGNALLING | 81 | 61 | All SZGR 2.0 genes in this pathway |
REACTOME METABOLISM OF LIPIDS AND LIPOPROTEINS | 478 | 302 | All SZGR 2.0 genes in this pathway |
REACTOME FATTY ACID TRIACYLGLYCEROL AND KETONE BODY METABOLISM | 168 | 115 | All SZGR 2.0 genes in this pathway |
REACTOME CIRCADIAN CLOCK | 53 | 40 | All SZGR 2.0 genes in this pathway |
REACTOME TRANSCRIPTIONAL REGULATION OF WHITE ADIPOCYTE DIFFERENTIATION | 72 | 53 | All SZGR 2.0 genes in this pathway |
REACTOME SIGNALING BY NOTCH | 103 | 64 | All SZGR 2.0 genes in this pathway |
DIAZ CHRONIC MEYLOGENOUS LEUKEMIA UP | 1382 | 904 | All SZGR 2.0 genes in this pathway |
SENESE HDAC3 TARGETS DN | 536 | 332 | All SZGR 2.0 genes in this pathway |
GRAESSMANN APOPTOSIS BY DOXORUBICIN DN | 1781 | 1082 | All SZGR 2.0 genes in this pathway |
OZANNE AP1 TARGETS UP | 18 | 11 | All SZGR 2.0 genes in this pathway |
MANN RESPONSE TO AMIFOSTINE UP | 20 | 12 | All SZGR 2.0 genes in this pathway |
DAIRKEE TERT TARGETS UP | 380 | 213 | All SZGR 2.0 genes in this pathway |
PUJANA BRCA1 PCC NETWORK | 1652 | 1023 | All SZGR 2.0 genes in this pathway |
PUJANA BRCA2 PCC NETWORK | 423 | 265 | All SZGR 2.0 genes in this pathway |
SCHAEFFER PROSTATE DEVELOPMENT 6HR DN | 514 | 330 | All SZGR 2.0 genes in this pathway |
BENPORATH MYC TARGETS WITH EBOX | 230 | 156 | All SZGR 2.0 genes in this pathway |
BENPORATH CYCLING GENES | 648 | 385 | All SZGR 2.0 genes in this pathway |
CHEN NEUROBLASTOMA COPY NUMBER GAINS | 50 | 35 | All SZGR 2.0 genes in this pathway |
PEART HDAC PROLIFERATION CLUSTER UP | 57 | 35 | All SZGR 2.0 genes in this pathway |
LIN APC TARGETS | 77 | 55 | All SZGR 2.0 genes in this pathway |
MARTINEZ RESPONSE TO TRABECTEDIN UP | 71 | 49 | All SZGR 2.0 genes in this pathway |
HEDENFALK BREAST CANCER BRCA1 VS BRCA2 | 163 | 113 | All SZGR 2.0 genes in this pathway |
HELLER HDAC TARGETS UP | 317 | 208 | All SZGR 2.0 genes in this pathway |
DANG BOUND BY MYC | 1103 | 714 | All SZGR 2.0 genes in this pathway |