Gene Page: HDAC9

Summary ?
GeneID9734
SymbolHDAC9
SynonymsHD7|HD7b|HD9|HDAC|HDAC7|HDAC7B|HDAC9B|HDAC9FL|HDRP|MITR
Descriptionhistone deacetylase 9
ReferenceMIM:606543|HGNC:HGNC:14065|Ensembl:ENSG00000048052|HPRD:05944|Vega:OTTHUMG00000152487
Gene typeprotein-coding
Map location7p21.1
Pascal p-value0.255
Fetal beta0.217
DMG1 (# studies)
SupportChromatin Remodeling Genes

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:GWASdbGenome-wide Association StudiesGWASdb records for schizophrenia
CV:PGCnpGenome-wide Association StudyGWAS
DMG:Wockner_2014Genome-wide DNA methylation analysisThis dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24). 1
PMID:cooccurHigh-throughput literature-searchSystematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
LiteratureHigh-throughput literature-searchCo-occurance with Schizophrenia keywords: schizophrenia,schizophreniasClick to show details

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg24458314718679329HDAC94.266E-40.4020.045DMG:Wockner_2014


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
GenePearson's Correlation Spearman's Correlation
SCFD20.910.89
CD2000.910.91
PSMD20.910.90
ZDHHC30.900.89
GORASP20.900.88
ASB80.890.88
ALAS10.890.85
KLHL120.890.86
TRPC4AP0.890.87
RNF410.890.86
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
MT-CO2-0.76-0.72
AF347015.21-0.76-0.74
AF347015.8-0.73-0.71
AF347015.31-0.73-0.70
AF347015.2-0.72-0.70
HIGD1B-0.72-0.69
MT-CYB-0.71-0.69
AF347015.33-0.71-0.69
AF347015.26-0.71-0.69
FXYD1-0.70-0.72

Section IV. Protein-protein interaction annotation

InteractorsAliases BOfficial full name BExperimentalSourcePubMed ID
BCL6BCL5 | BCL6A | LAZ3 | ZBTB27 | ZNF51B-cell CLL/lymphoma 6-HPRD12590135 
CBX5HP1 | HP1Achromobox homolog 5 (HP1 alpha homolog, Drosophila)-HPRD,BioGRID12242305 
CTBP1BARS | MGC104684C-terminal binding protein 1in vitro
in vivo
Reconstituted Complex
Two-hybrid		BioGRID11022042 
ETV6TEL | TEL/ABLets variant 6Affinity Capture-WesternBioGRID12590135 
HDAC1DKFZp686H12203 | GON-10 | HD1 | RPD3 | RPD3L1histone deacetylase 1Affinity Capture-WesternBioGRID10655483 
HDAC1DKFZp686H12203 | GON-10 | HD1 | RPD3 | RPD3L1histone deacetylase 1An unspecified isoform of HDAC9 (MITR) interacts with HDAC1. This interaction was modelled on a demonstrated interaction between an unspecified isoform of human HDAC9 and HDAC1 from an unspecified species.BIND15711539 
HDAC1DKFZp686H12203 | GON-10 | HD1 | RPD3 | RPD3L1histone deacetylase 1-HPRD12590135 
HDAC3HD3 | RPD3 | RPD3-2histone deacetylase 3An 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.BIND15711539 
HDAC3HD3 | RPD3 | RPD3-2histone deacetylase 3-HPRD,BioGRID10655483 
HDAC4HA6116 | HD4 | HDAC-A | HDACA | KIAA0288histone deacetylase 4-HPRD,BioGRID12590135 
HEY2CHF1 | GRIDLOCK | GRL | HERP1 | HESR2 | HRT2 | MGC10720 | bHLHb32hairy/enhancer-of-split related with YRPW motif 2Affinity Capture-WesternBioGRID11486045 
HIST2H3AH3/n | H3/ohistone cluster 2, H3aBiochemical ActivityBioGRID12590135 
HIST4H4H4/p | MGC24116histone cluster 4, H4Biochemical ActivityBioGRID12590135 
MEF2AADCAD1 | RSRFC4 | RSRFC9myocyte enhancer factor 2AAffinity Capture-Western
Reconstituted Complex		BioGRID10487761 |10748098 
MEF2AADCAD1 | RSRFC4 | RSRFC9myocyte enhancer factor 2A-HPRD10825153 
MORF4L2KIAA0026 | MORFL2 | MRGXmortality factor 4 like 2Affinity Capture-WesternBioGRID14506250 
NCOR1KIAA1047 | MGC104216 | N-CoR | TRAC1 | hCIT529I10 | hN-CoRnuclear receptor co-repressor 1Affinity Capture-Western
Reconstituted Complex		BioGRID12590135 
NRIP1FLJ77253 | RIP140nuclear receptor interacting protein 1Reconstituted ComplexBioGRID15060175 
SIN3ADKFZp434K2235 | FLJ90319 | KIAA0700SIN3 homolog A, transcription regulator (yeast)Affinity Capture-Western
Reconstituted Complex		BioGRID11959865 |12590135 
SIN3BKIAA0700SIN3 homolog B, transcription regulator (yeast)Reconstituted ComplexBioGRID12590135 
SUMO1DAP-1 | GMP1 | OFC10 | PIC1 | SENP2 | SMT3 | SMT3C | SMT3H3 | SUMO-1 | UBL1SMT3 suppressor of mif two 3 homolog 1 (S. cerevisiae)-HPRD12590135 
SUMO2HSMT3 | MGC117191 | SMT3B | SMT3H2SMT3 suppressor of mif two 3 homolog 2 (S. cerevisiae)-HPRD12590135 
SUV39H1KMT1A | MG44 | SUV39Hsuppressor of variegation 3-9 homolog 1 (Drosophila)Affinity Capture-Western
Reconstituted Complex		BioGRID12242305 
ZBTB16PLZF | ZNF145zinc finger and BTB domain containing 16-HPRD12590135 


Section V. Pathway annotation

Pathway namePathway size# SZGR 2.0 genes in pathwayInfo
BIOCARTA CARM ER PATHWAY 3527All SZGR 2.0 genes in this pathway
PID HDAC CLASSII PATHWAY 3427All SZGR 2.0 genes in this pathway
PID HDAC CLASSI PATHWAY 6650All SZGR 2.0 genes in this pathway
REACTOME NOTCH1 INTRACELLULAR DOMAIN REGULATES TRANSCRIPTION 4628All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY NOTCH1 7046All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY NOTCH 10364All SZGR 2.0 genes in this pathway
HOLLMANN APOPTOSIS VIA CD40 DN 267178All SZGR 2.0 genes in this pathway
ONKEN UVEAL MELANOMA DN 526357All SZGR 2.0 genes in this pathway
ZHOU INFLAMMATORY RESPONSE LIVE DN 384220All SZGR 2.0 genes in this pathway
GARGALOVIC RESPONSE TO OXIDIZED PHOSPHOLIPIDS GREEN UP 2319All SZGR 2.0 genes in this pathway
SENESE HDAC1 TARGETS UP 457269All SZGR 2.0 genes in this pathway
SENESE HDAC3 TARGETS UP 501327All SZGR 2.0 genes in this pathway
RODRIGUES THYROID CARCINOMA ANAPLASTIC UP 722443All SZGR 2.0 genes in this pathway
GOZGIT ESR1 TARGETS DN 781465All SZGR 2.0 genes in this pathway
CONCANNON APOPTOSIS BY EPOXOMICIN DN 172112All SZGR 2.0 genes in this pathway
GAUSSMANN MLL AF4 FUSION TARGETS E UP 9760All SZGR 2.0 genes in this pathway
MARTORIATI MDM4 TARGETS NEUROEPITHELIUM DN 164111All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 48HR UP 487286All SZGR 2.0 genes in this pathway
BENPORATH SOX2 TARGETS 734436All SZGR 2.0 genes in this pathway
ZHANG RESPONSE TO IKK INHIBITOR AND TNF UP 223140All SZGR 2.0 genes in this pathway
ONDER CDH1 TARGETS 2 DN 464276All SZGR 2.0 genes in this pathway
CERVERA SDHB TARGETS 2 11476All SZGR 2.0 genes in this pathway
BASSO CD40 SIGNALING DN 6844All SZGR 2.0 genes in this pathway
ALCALAY AML BY NPM1 LOCALIZATION DN 184132All SZGR 2.0 genes in this pathway
HARRIS HYPOXIA 8164All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 6HR DN 160101All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 6HR UP 953554All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 24HR UP 783442All SZGR 2.0 genes in this pathway
GAVIN FOXP3 TARGETS CLUSTER P3 160103All SZGR 2.0 genes in this pathway
GAZIN EPIGENETIC SILENCING BY KRAS 2616All SZGR 2.0 genes in this pathway
RIGGI EWING SARCOMA PROGENITOR UP 430288All SZGR 2.0 genes in this pathway
MITSIADES RESPONSE TO APLIDIN DN 249165All SZGR 2.0 genes in this pathway
WINTER HYPOXIA METAGENE 242168All SZGR 2.0 genes in this pathway
RUTELLA RESPONSE TO CSF2RB AND IL4 DN 315201All SZGR 2.0 genes in this pathway
RUTELLA RESPONSE TO HGF DN 235144All SZGR 2.0 genes in this pathway
RUTELLA RESPONSE TO HGF VS CSF2RB AND IL4 UP 408276All SZGR 2.0 genes in this pathway
LIU VAV3 PROSTATE CARCINOGENESIS UP 8961All SZGR 2.0 genes in this pathway
HOSHIDA LIVER CANCER SURVIVAL UP 7349All SZGR 2.0 genes in this pathway
YAGI AML WITH 11Q23 REARRANGED 351238All SZGR 2.0 genes in this pathway
FONTAINE FOLLICULAR THYROID ADENOMA UP 7543All SZGR 2.0 genes in this pathway
CAIRO HEPATOBLASTOMA CLASSES DN 210141All SZGR 2.0 genes in this pathway
MIKKELSEN NPC ICP WITH H3K4ME3 445257All SZGR 2.0 genes in this pathway
HOELZEL NF1 TARGETS DN 11573All SZGR 2.0 genes in this pathway
SUBTIL PROGESTIN TARGETS 3625All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE EARLY LATE 317190All SZGR 2.0 genes in this pathway
ISSAEVA MLL2 TARGETS 6235All SZGR 2.0 genes in this pathway
GOBERT OLIGODENDROCYTE DIFFERENTIATION DN 1080713All SZGR 2.0 genes in this pathway
WANG MLL TARGETS 289188All SZGR 2.0 genes in this pathway
PHONG TNF RESPONSE VIA P38 COMPLETE 227151All SZGR 2.0 genes in this pathway
RAO BOUND BY SALL4 ISOFORM B 517302All SZGR 2.0 genes in this pathway
ACEVEDO FGFR1 TARGETS IN PROSTATE CANCER MODEL DN 308187All SZGR 2.0 genes in this pathway
ZWANG TRANSIENTLY UP BY 1ST EGF PULSE ONLY 1839928All SZGR 2.0 genes in this pathway