Gene Page:HDAC5

Summary?
GeneID 10014
Symbol HDAC5
Synonyms HD5|NY-CO-9
Description histone deacetylase 5
Reference MIM:605315|HGNC:HGNC:14068|Ensembl:ENSG00000108840|HPRD:09246|Vega:OTTHUMG00000181806
Gene type protein-coding
Map location 17q21
Pascal p-value 0.363
Sherlock p-value 0.975
Fetal beta 0.65
DMG 1 (# studies)
eGene Myers' cis & trans
Support CompositeSet
Darnell FMRP targets
Chromatin Remodeling Genes

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
PMID:cooccur High-throughput literature-search Systematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
Literature High-throughput literature-search 与精神分裂症Co-occurance关键词:schizophrenia,schizophrenic,schizophrenias Click to show details

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

Probe Chromosome Position Nearest gene P (dis) Beta (dis) FDR (dis) Study
cg14776943 17 42201167 HDAC5 6.6E-8 -0.01 1.63E-5 DMG:Jaffe_2016

@eQTL annotation

SNP ID Chromosome Position eGene Gene Entrez ID pvalue qvalue TSS distance eQTL type
rs11984825 chr8 1201727 HDAC5 10014 0.17 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
SUCLA2 0.91 0.91
UBE2E2 0.91 0.91
TMEM66 0.91 0.92
ATL1 0.90 0.91
RTN3 0.90 0.91
GHITM 0.90 0.91
REEP5 0.90 0.91
MOAP1 0.90 0.92
NAPG 0.90 0.92
COQ10B 0.90 0.91
Top 10 negatively co-expressed genes
Gene Pearson'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

Interactors Aliases B Official full name B Experimental Source PubMed ID
ANKRD11 ANCO-1 | LZ16 | T13 ankyrin repeat domain 11 - HPRD 15184363
BCL6 BCL5 | BCL6A | LAZ3 | ZBTB27 | ZNF51 B-cell CLL/lymphoma 6 - HPRD,BioGRID 11929873
BCOR ANOP2 | FLJ20285 | FLJ38041 | KIAA1575 | MAA2 | MCOPS2 | MGC131961 | MGC71031 BCL6 co-repressor - HPRD 10898795
CBX5 HP1 | HP1A chromobox homolog 5 (HP1 alpha homolog, Drosophila) - HPRD,BioGRID 12242305
CTBP1 BARS | MGC104684 C-terminal binding protein 1 Reconstituted Complex BioGRID 11022042
EEF1G EF1G | GIG35 eukaryotic translation elongation factor 1 gamma Two-hybrid BioGRID 16169070
GABARAP FLJ25768 | MGC120154 | MGC120155 | MM46 GABA(A) receptor-associated protein Two-hybrid BioGRID 16169070
GATA1 ERYF1 | GF-1 | GF1 | NFE1 GATA binding protein 1 (globin transcription factor 1) - HPRD,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-Western BioGRID 11931768
HDAC3 HD3 | RPD3 | RPD3-2 histone deacetylase 3 - HPRD,BioGRID 11804585
HDAC3 HD3 | RPD3 | RPD3-2 histone deacetylase 3 - HPRD 11466315
HR ALUNC | AU | HSA277165 hairless homolog (mouse) Affinity Capture-Western BioGRID 11641275
IKZF1 Hs.54452 | IK1 | IKAROS | LYF1 | PRO0758 | ZNFN1A1 | hIk-1 IKAROS family zinc finger 1 (Ikaros) Affinity Capture-Western BioGRID 12015313
IKZF2 HELIOS | MGC34330 | ZNF1A2 | ZNFN1A2 IKAROS family zinc finger 2 (Helios) Affinity Capture-Western BioGRID 12015313
IKZF3 AIO | AIOLOS | ZNFN1A3 IKAROS family zinc finger 3 (Aiolos) Affinity Capture-Western BioGRID 12015313
IKZF4 EOS | KIAA1782 | ZNFN1A4 IKAROS family zinc finger 4 (Eos) Affinity Capture-Western BioGRID 12015313
MAP3K7IP2 FLJ21885 | KIAA0733 | TAB2 mitogen-activated protein kinase kinase kinase 7 interacting protein 2 Reconstituted Complex BioGRID 12150997
MEF2A ADCAD1 | RSRFC4 | RSRFC9 myocyte enhancer factor 2A - HPRD,BioGRID 10748098
MEF2D DKFZp686I1536 myocyte enhancer factor 2D Affinity Capture-Western BioGRID 12896970
NCOR1 KIAA1047 | MGC104216 | N-CoR | TRAC1 | hCIT529I10 | hN-CoR nuclear receptor co-repressor 1 - HPRD,BioGRID 10640275
NCOR2 CTG26 | SMRT | SMRTE | SMRTE-tau | TNRC14 | TRAC-1 | TRAC1 nuclear receptor co-repressor 2 - HPRD 10869435
NCOR2 CTG26 | SMRT | SMRTE | SMRTE-tau | TNRC14 | TRAC-1 | TRAC1 nuclear receptor co-repressor 2 Reconstituted Complex
Two-hybrid		 BioGRID 10640275
NRIP1 FLJ77253 | RIP140 nuclear receptor interacting protein 1 Co-localization
Reconstituted Complex		 BioGRID 15060175
PRKD1 PKC-MU | PKCM | PKD | PRKCM protein kinase D1 Affinity Capture-Western BioGRID 15367659
RUNX3 AML2 | CBFA3 | FLJ34510 | MGC16070 | PEBP2aC runt-related transcription factor 3 - HPRD 15138260
RUVBL2 CGI-46 | ECP51 | INO80J | REPTIN | RVB2 | TIH2 | TIP48 | TIP49B RuvB-like 2 (E. coli) RUVBL2 (reptin) interacts with an unspecified isoform of HDAC5. BIND 15829968
SFN YWHAS stratifin - HPRD 15367659
SUV39H1 KMT1A | MG44 | SUV39H suppressor of variegation 3-9 homolog 1 (Drosophila) - HPRD,BioGRID 12242305
TBL1X EBI | SMAP55 | TBL1 transducin (beta)-like 1X-linked Affinity Capture-Western BioGRID 11931768
TNFSF10 APO2L | Apo-2L | CD253 | TL2 | TRAIL tumor necrosis factor (ligand) superfamily, member 10 An unspecifed isoform of HDAC5 interacts with the TNFSF10 promoter. BIND 15619633
YWHAB GW128 | HS1 | KCIP-1 tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta polypeptide - HPRD,BioGRID 10869435
YWHAE 14-3-3E | FLJ45465 | KCIP-1 | MDCR | MDS tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, epsilon polypeptide - HPRD,BioGRID 10869435
YWHAQ 14-3-3 | 1C5 | HS1 tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta polypeptide Affinity Capture-Western
Two-hybrid		 BioGRID 15367659
ZBTB16 PLZF | ZNF145 zinc finger and BTB domain containing 16 - HPRD,BioGRID 11929873|15467736


Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
BIOCARTA CARM ER PATHWAY 35 27 All SZGR 2.0 genes in this pathway
BIOCARTA HDAC PATHWAY 32 25 All SZGR 2.0 genes in this pathway
BIOCARTA ETS通路 18 12 All SZGR 2.0 genes in this pathway
BIOCARTA PGC1A PATHWAY 26 20 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
REACTOME NOTCH1 INTRACELLULAR DOMAIN REGULATES TRANSCRIPTION 46 28 All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY NOTCH1 70 46 All SZGR 2.0 genes in this pathway
REACTOME SIGNALING BY NOTCH 103 64 All SZGR 2.0 genes in this pathway
DAVICIONI PAX FOXO1 SIGNATURE IN ARMS UP 59 38 All SZGR 2.0 genes in this pathway
ZHONG RESPONSE TO AZACITIDINE AND TSA UP 183 119 All SZGR 2.0 genes in this pathway
DAVICIONI MOLECULAR ARMS VS ERMS UP 332 228 All SZGR 2.0 genes in this pathway
DAVICIONI TARGETS OF PAX FOXO1 FUSIONS UP 255 177 All SZGR 2.0 genes in this pathway
DAVICIONI RHABDOMYOSARCOMA PAX FOXO1 FUSION UP 64 37 All SZGR 2.0 genes in this pathway
KINSEY TARGETS OF EWSR1 FLII FUSION DN 329 219 All SZGR 2.0 genes in this pathway
DODD NASOPHARYNGEAL CARCINOMA UP 1821 933 All SZGR 2.0 genes in this pathway
ENK UV RESPONSE EPIDERMIS DN 508 354 All SZGR 2.0 genes in this pathway
RIZ ERYTHROID DIFFERENTIATION 12HR 43 35 All SZGR 2.0 genes in this pathway
PEREZ TP53 TARGETS 1174 695 All SZGR 2.0 genes in this pathway
BUYTAERT PHOTODYNAMIC THERAPY STRESS UP 811 508 All SZGR 2.0 genes in this pathway
LOPEZ MBD TARGETS 957 597 All SZGR 2.0 genes in this pathway
SAKAI TUMOR INFILTRATING MONOCYTES UP 27 19 All SZGR 2.0 genes in this pathway
PENG LEUCINE DEPRIVATION UP 142 93 All SZGR 2.0 genes in this pathway
PEART HDAC PROLIFERATION CLUSTER UP 57 35 All SZGR 2.0 genes in this pathway
PENG RAPAMYCIN RESPONSE UP 203 130 All SZGR 2.0 genes in this pathway
THEILGAARD NEUTROPHIL AT SKIN WOUND DN 225 163 All SZGR 2.0 genes in this pathway
CHANG CORE SERUM RESPONSE DN 209 137 All SZGR 2.0 genes in this pathway
HOFFMANN PRE BI TO LARGE PRE BII LYMPHOCYTE UP 36 24 All SZGR 2.0 genes in this pathway
SHEDDEN LUNG CANCER GOOD SURVIVAL A4 196 124 All SZGR 2.0 genes in this pathway
HAN SATB1 TARGETS UP 395 249 All SZGR 2.0 genes in this pathway
SHAFFER IRF4 TARGETS IN MYELOMA VS MATURE B LYMPHOCYTE 101 76 All SZGR 2.0 genes in this pathway
QI HYPOXIA 140 96 All SZGR 2.0 genes in this pathway
KASLER HDAC7 TARGETS 1 UP 194 133 All SZGR 2.0 genes in this pathway
LEE BMP2 TARGETS UP 745 475 All SZGR 2.0 genes in this pathway
GOBERT OLIGODENDROCYTE DIFFERENTIATION DN 1080 713 All SZGR 2.0 genes in this pathway