Gene Page: HDAC5

Summary ?
GeneID10014
SymbolHDAC5
SynonymsHD5|NY-CO-9
Descriptionhistone deacetylase 5
ReferenceMIM:605315|HGNC:HGNC:14068|Ensembl:ENSG00000108840|HPRD:09246|Vega:OTTHUMG00000181806
Gene typeprotein-coding
Map location17q21
Pascal p-value0.363
Sherlock p-value0.975
Fetal beta0.65
DMG1 (# studies)
eGeneMyers' cis & trans
SupportCompositeSet
Darnell FMRP targets
Chromatin Remodeling Genes

Gene in Data Sources
Gene set name Method of gene setDescriptionInfo
CV:PGCnpGenome-wide Association StudyGWAS
DMG:Jaffe_2016Genome-wide DNA methylation analysisThis dataset includes 2,104 probes/CpGs associated with SZ patients (n=108) compared to 136 controls at Bonferroni-adjusted P < 0.05. 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,schizophrenic,schizophreniasClick to show details

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

ProbeChromosomePositionNearest geneP (dis)Beta (dis)FDR (dis)Study
cg147769431742201167HDAC56.6E-8-0.011.63E-5DMG:Jaffe_2016

@eQTL annotation

SNP IDChromosomePositioneGeneGene Entrez IDpvalueqvalueTSS distanceeQTL type
rs11984825chr81201727HDAC5100140.17trans

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
SUCLA20.910.91
UBE2E20.910.91
TMEM660.910.92
ATL10.900.91
RTN30.900.91
GHITM0.900.91
REEP50.900.91
MOAP10.900.92
NAPG0.900.92
COQ10B0.900.91
Top 10 negatively co-expressed genes
GenePearson's Correlation Spearman's Correlation
AF347015.18-0.51-0.30
AF347015.21-0.48-0.21
AC010300.1-0.46-0.44
AC098691.2-0.44-0.32
FAM159B-0.44-0.49
AL022328.1-0.44-0.41
AC135724.1-0.43-0.47
AC100783.1-0.43-0.36
NSBP1-0.43-0.37
C10orf108-0.42-0.37

Section IV. Protein-protein interaction annotation

InteractorsAliases BOfficial full name BExperimentalSourcePubMed ID
ANKRD11ANCO-1 | LZ16 | T13ankyrin repeat domain 11-HPRD15184363 
BCL6BCL5 | BCL6A | LAZ3 | ZBTB27 | ZNF51B-cell CLL/lymphoma 6-HPRD,BioGRID11929873 
BCORANOP2 | FLJ20285 | FLJ38041 | KIAA1575 | MAA2 | MCOPS2 | MGC131961 | MGC71031BCL6 co-repressor-HPRD10898795 
CBX5HP1 | HP1Achromobox homolog 5 (HP1 alpha homolog, Drosophila)-HPRD,BioGRID12242305 
CTBP1BARS | MGC104684C-terminal binding protein 1Reconstituted ComplexBioGRID11022042 
EEF1GEF1G | GIG35eukaryotic translation elongation factor 1 gammaTwo-hybridBioGRID16169070 
GABARAPFLJ25768 | MGC120154 | MGC120155 | MM46GABA(A) receptor-associated proteinTwo-hybridBioGRID16169070 
GATA1ERYF1 | GF-1 | GF1 | NFE1GATA binding protein 1 (globin transcription factor 1)-HPRD,BioGRID14668799 
GATA2MGC2306 | NFE1BGATA binding protein 2-HPRD,BioGRID11567998 
GPS2AMF-1 | MGC104294 | MGC119287 | MGC119288 | MGC119289G protein pathway suppressor 2Affinity Capture-WesternBioGRID11931768 
HDAC3HD3 | RPD3 | RPD3-2histone deacetylase 3-HPRD,BioGRID11804585 
HDAC3HD3 | RPD3 | RPD3-2histone deacetylase 3-HPRD11466315 
HRALUNC | AU | HSA277165hairless homolog (mouse)Affinity Capture-WesternBioGRID11641275 
IKZF1Hs.54452 | IK1 | IKAROS | LYF1 | PRO0758 | ZNFN1A1 | hIk-1IKAROS family zinc finger 1 (Ikaros)Affinity Capture-WesternBioGRID12015313 
IKZF2HELIOS | MGC34330 | ZNF1A2 | ZNFN1A2IKAROS family zinc finger 2 (Helios)Affinity Capture-WesternBioGRID12015313 
IKZF3AIO | AIOLOS | ZNFN1A3IKAROS family zinc finger 3 (Aiolos)Affinity Capture-WesternBioGRID12015313 
IKZF4EOS | KIAA1782 | ZNFN1A4IKAROS family zinc finger 4 (Eos)Affinity Capture-WesternBioGRID12015313 
MAP3K7IP2FLJ21885 | KIAA0733 | TAB2mitogen-activated protein kinase kinase kinase 7 interacting protein 2Reconstituted ComplexBioGRID12150997 
MEF2AADCAD1 | RSRFC4 | RSRFC9myocyte enhancer factor 2A-HPRD,BioGRID10748098 
MEF2DDKFZp686I1536myocyte enhancer factor 2DAffinity Capture-WesternBioGRID12896970 
NCOR1KIAA1047 | MGC104216 | N-CoR | TRAC1 | hCIT529I10 | hN-CoRnuclear receptor co-repressor 1-HPRD,BioGRID10640275 
NCOR2CTG26 | SMRT | SMRTE | SMRTE-tau | TNRC14 | TRAC-1 | TRAC1nuclear receptor co-repressor 2-HPRD10869435 
NCOR2CTG26 | SMRT | SMRTE | SMRTE-tau | TNRC14 | TRAC-1 | TRAC1nuclear receptor co-repressor 2Reconstituted Complex
Two-hybrid		BioGRID10640275 
NRIP1FLJ77253 | RIP140nuclear receptor interacting protein 1Co-localization
Reconstituted Complex		BioGRID15060175 
PRKD1PKC-MU | PKCM | PKD | PRKCMprotein kinase D1Affinity Capture-WesternBioGRID15367659 
RUNX3AML2 | CBFA3 | FLJ34510 | MGC16070 | PEBP2aCrunt-related transcription factor 3-HPRD15138260 
RUVBL2CGI-46 | ECP51 | INO80J | REPTIN | RVB2 | TIH2 | TIP48 | TIP49BRuvB-like 2 (E. coli)RUVBL2 (reptin) interacts with an unspecified isoform of HDAC5.BIND15829968 
SFNYWHASstratifin-HPRD15367659 
SUV39H1KMT1A | MG44 | SUV39Hsuppressor of variegation 3-9 homolog 1 (Drosophila)-HPRD,BioGRID12242305 
TBL1XEBI | SMAP55 | TBL1transducin (beta)-like 1X-linkedAffinity Capture-WesternBioGRID11931768 
TNFSF10APO2L | Apo-2L | CD253 | TL2 | TRAILtumor necrosis factor (ligand) superfamily, member 10An unspecifed isoform of HDAC5 interacts with the TNFSF10 promoter.BIND15619633 
YWHABGW128 | HS1 | KCIP-1tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta polypeptide-HPRD,BioGRID10869435 
YWHAE14-3-3E | FLJ45465 | KCIP-1 | MDCR | MDStyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, epsilon polypeptide-HPRD,BioGRID10869435 
YWHAQ14-3-3 | 1C5 | HS1tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptideAffinity Capture-Western
Two-hybrid		BioGRID15367659 
ZBTB16PLZF | ZNF145zinc finger and BTB domain containing 16-HPRD,BioGRID11929873 |15467736 


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
BIOCARTA HDAC PATHWAY 3225All SZGR 2.0 genes in this pathway
BIOCARTA ETS PATHWAY 1812All SZGR 2.0 genes in this pathway
BIOCARTA PGC1A PATHWAY 2620All 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
DAVICIONI PAX FOXO1 SIGNATURE IN ARMS UP 5938All SZGR 2.0 genes in this pathway
ZHONG RESPONSE TO AZACITIDINE AND TSA UP 183119All SZGR 2.0 genes in this pathway
DAVICIONI MOLECULAR ARMS VS ERMS UP 332228All SZGR 2.0 genes in this pathway
DAVICIONI TARGETS OF PAX FOXO1 FUSIONS UP 255177All SZGR 2.0 genes in this pathway
DAVICIONI RHABDOMYOSARCOMA PAX FOXO1 FUSION UP 6437All SZGR 2.0 genes in this pathway
KINSEY TARGETS OF EWSR1 FLII FUSION DN 329219All SZGR 2.0 genes in this pathway
DODD NASOPHARYNGEAL CARCINOMA UP 1821933All SZGR 2.0 genes in this pathway
ENK UV RESPONSE EPIDERMIS DN 508354All SZGR 2.0 genes in this pathway
RIZ ERYTHROID DIFFERENTIATION 12HR 4335All SZGR 2.0 genes in this pathway
PEREZ TP53 TARGETS 1174695All SZGR 2.0 genes in this pathway
BUYTAERT PHOTODYNAMIC THERAPY STRESS UP 811508All SZGR 2.0 genes in this pathway
LOPEZ MBD TARGETS 957597All SZGR 2.0 genes in this pathway
SAKAI TUMOR INFILTRATING MONOCYTES UP 2719All SZGR 2.0 genes in this pathway
PENG LEUCINE DEPRIVATION UP 14293All SZGR 2.0 genes in this pathway
PEART HDAC PROLIFERATION CLUSTER UP 5735All SZGR 2.0 genes in this pathway
PENG RAPAMYCIN RESPONSE UP 203130All SZGR 2.0 genes in this pathway
THEILGAARD NEUTROPHIL AT SKIN WOUND DN 225163All SZGR 2.0 genes in this pathway
CHANG CORE SERUM RESPONSE DN 209137All SZGR 2.0 genes in this pathway
HOFFMANN PRE BI TO LARGE PRE BII LYMPHOCYTE UP 3624All SZGR 2.0 genes in this pathway
SHEDDEN LUNG CANCER GOOD SURVIVAL A4 196124All SZGR 2.0 genes in this pathway
HAN SATB1 TARGETS UP 395249All SZGR 2.0 genes in this pathway
SHAFFER IRF4 TARGETS IN MYELOMA VS MATURE B LYMPHOCYTE 10176All SZGR 2.0 genes in this pathway
QI HYPOXIA 14096All SZGR 2.0 genes in this pathway
KASLER HDAC7 TARGETS 1 UP 194133All SZGR 2.0 genes in this pathway
LEE BMP2 TARGETS UP 745475All SZGR 2.0 genes in this pathway
GOBERT OLIGODENDROCYTE DIFFERENTIATION DN 1080713All SZGR 2.0 genes in this pathway