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ONTOLOGY REPORT - ANNOTATIONS


Term:histone deacetylation
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Accession:GO:0016575 term browser browse the term
Definition:The modification of histones by removal of acetyl groups.


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histone deacetylation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Baz2a bromodomain adjacent to zinc finger domain 2A ISO (MGI:MGI:3852313|PMID:12198165) UniProtKB PMID:12198165 MGI:MGI:3852313 NCBI chrNW_004936646:914,944...949,057 JBrowse link
G Hdac1 histone deacetylase 1 ISO (PMID:19182791) UniProtKB PMID:19182791 NCBI chrNW_004936474:15,320,635...15,351,418 JBrowse link
G Hdac10 histone deacetylase 10 ISO (PMID:11739383), (PMID:11861901) UniProtKB PMID:11739383, PMID:11861901 NCBI chrNW_004936629:562,038...567,709 JBrowse link
G Hdac11 histone deacetylase 11 ISO (PMID:11948178) UniProtKB PMID:11948178 NCBI chrNW_004936898:148,891...177,471 JBrowse link
G Hdac2 histone deacetylase 2 ISO (PMID:19372552)
(MGI:MGI:3712793|PMID:12975471)
BHF-UCL
MGI
PMID:12975471, PMID:19372552 MGI:MGI:3712793 NCBI chrNW_004936679:2,448,676...2,474,641 JBrowse link
G Hdac3 histone deacetylase 3 ISO (MGI:MGI:3580040|PMID:15832170)
(MGI:MGI:3807603|PMID:17464331)
MGI PMID:15832170, PMID:17464331 MGI:MGI:3580040, MGI:MGI:3807603 NCBI chrNW_004936504:12,530,546...12,546,556 JBrowse link
G Hdac4 histone deacetylase 4 ISO (PMID:10869435)
(PMID:18850004)
BHF-UCL PMID:10869435, PMID:18850004 NCBI chrNW_004936745:1,730,743...1,942,071 JBrowse link
G Hdac5 histone deacetylase 5 ISO (PMID:10869435) BHF-UCL PMID:10869435 NCBI chrNW_004936541:561,721...598,915 JBrowse link
G Hdac6 histone deacetylase 6 ISO (MGI:MGI:5605128|PMID:24882211)
(PMID:10220385)
CACAO
BHF-UCL
PMID:10220385, PMID:24882211 MGI:MGI:5605128 NCBI chrNW_004936721:757,500...778,416 JBrowse link
G Hdac9 histone deacetylase 9 ISO (PMID:11535832) BHF-UCL PMID:11535832 NCBI chrNW_004936546:4,398,003...5,247,649 JBrowse link
G Hopx HOP homeobox ISO (MGI:MGI:3712793|PMID:12975471) MGI PMID:12975471 MGI:MGI:3712793 NCBI chrNW_004936482:18,841,220...18,872,136 JBrowse link
G Mier1 MIER1 transcriptional regulator ISO (PMID:28046085) UniProtKB PMID:28046085 NCBI chrNW_004936591:4,584,527...4,642,920 JBrowse link
G Mier2 MIER family member 2 ISO (PMID:28046085) UniProtKB PMID:28046085 NCBI chrNW_004936588:25,272...46,226 JBrowse link
G Mier3 MIER family member 3 NOT ISO (PMID:28046085) UniProtKB PMID:28046085 NCBI chrNW_004936480:11,001,964...11,031,891 JBrowse link
G Morf4l1 mortality factor 4 like 1 ISO (PMID:14966270) UniProtKB PMID:14966270 NCBI chrNW_004936471:37,073,920...37,097,216 JBrowse link
G Phb prohibitin ISO (PMID:12466959) UniProtKB PMID:12466959 NCBI chrNW_004936490:12,127,065...12,138,870 JBrowse link
G Prdm5 PR/SET domain 5 ISO (PMID:17636019) UniProtKB PMID:17636019 NCBI chrNW_004936662:388,279...524,803 JBrowse link
G Rbm14 RNA binding motif protein 14 ISO (PMID:11443112) UniProtKB PMID:11443112 NCBI chrNW_004936599:2,968,178...2,984,033 JBrowse link
G Sirt1 sirtuin 1 ISO (MGI:MGI:1891853|PMID:10693811), (MGI:MGI:4887284|PMID:20972425)
(MGI:MGI:5493185|PMID:23160044)
(PMID:12006491), (PMID:15469825), (PMID:16079181), (PMID:17172643)
MGI
BHF-UCL
PMID:10693811, PMID:12006491, PMID:15469825, PMID:16079181, PMID:17172643, PMID:20972425, PMID:23160044 MGI:MGI:1891853, MGI:MGI:4887284, MGI:MGI:5493185 NCBI chrNW_004936521:10,296,097...10,316,673 JBrowse link
G Sirt2 sirtuin 2 NOT ISO (PMID:24177535)
(MGI:MGI:4462728|PMID:20562830)
UniProtKB
MGI
PMID:20562830, PMID:24177535 MGI:MGI:4462728 NCBI chrNW_004936661:1,828,868...1,849,892 JBrowse link
G Suds3 SDS3 homolog, SIN3A corepressor complex component ISO (PMID:21239494) UniProtKB PMID:21239494 NCBI chrNW_004936668:2,078,783...2,113,154 JBrowse link
histone H3 deacetylation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Atxn3 ataxin 3 ISO RGD PMID:17079677 RGD:5688291 NCBI chrNW_004936733:306,400...347,161 JBrowse link
G Elk4 ETS transcription factor ELK4 ISO (PMID:22722849) UniProtKB PMID:22722849 NCBI chrNW_004936557:6,805,305...6,814,702 JBrowse link
G Hdac1 histone deacetylase 1 ISO (PMID:12590135)
(MGI:MGI:5567917|PMID:15226430)
BHF-UCL
UniProtKB
RGD
PMID:12590135, PMID:15226430, PMID:19765194 MGI:MGI:5567917, RGD:2316171 NCBI chrNW_004936474:15,320,635...15,351,418 JBrowse link
G Hdac2 histone deacetylase 2 ISO (MGI:MGI:5567917|PMID:15226430) UniProtKB
RGD
PMID:15226430, PMID:24441681 MGI:MGI:5567917, RGD:9590255 NCBI chrNW_004936679:2,448,676...2,474,641 JBrowse link
G Hdac3 histone deacetylase 3 ISO RGD PMID:17079677 RGD:5688291 NCBI chrNW_004936504:12,530,546...12,546,556 JBrowse link
G Hdac4 histone deacetylase 4 ISO (PMID:12590135) BHF-UCL PMID:12590135 NCBI chrNW_004936745:1,730,743...1,942,071 JBrowse link
G Hdac9 histone deacetylase 9 ISO (PMID:12590135) BHF-UCL PMID:12590135 NCBI chrNW_004936546:4,398,003...5,247,649 JBrowse link
G Per1 period circadian regulator 1 ISO (MGI:MGI:5014424|PMID:21680841) UniProtKB PMID:21680841 MGI:MGI:5014424 NCBI chrNW_004936595:1,366,883...1,382,138 JBrowse link
G Per2 period circadian regulator 2 ISO (MGI:MGI:5014424|PMID:21680841) UniProtKB PMID:21680841 MGI:MGI:5014424 NCBI chrNW_004936525:221,601...263,284 JBrowse link
G Sfpq splicing factor proline and glutamine rich ISO (MGI:MGI:5014424|PMID:21680841) UniProtKB PMID:21680841 MGI:MGI:5014424 NCBI chrNW_004936474:17,776,490...17,791,966 JBrowse link
G Sirt1 sirtuin 1 ISO (PMID:20027304)
(PMID:17505061)
RGD
BHF-UCL
PMID:17505061, PMID:20027304, PMID:20089851 RGD:2316169 NCBI chrNW_004936521:10,296,097...10,316,673 JBrowse link
G Sirt2 sirtuin 2 ISO (MGI:MGI:5502462|PMID:23908241)
(PMID:23908241)
UniProtKB PMID:23908241 MGI:MGI:5502462 NCBI chrNW_004936661:1,828,868...1,849,892 JBrowse link
G Sirt7 sirtuin 7 ISO (MGI:MGI:5789069|PMID:27225932), (MGI:MGI:6377981|PMID:31226208), (MGI:MGI:6378020|PMID:31256246)
(PMID:22722849), (PMID:26907567), (PMID:28655758), (PMID:30420520), (PMID:30653310)
UniProt PMID:22722849, PMID:26907567, PMID:27225932, PMID:28655758, PMID:30420520, PMID:30653310, PMID:31226208, PMID:31256246 MGI:MGI:5789069, MGI:MGI:6377981, MGI:MGI:6378020 NCBI chrNW_004936594:5,418,331...5,425,050 JBrowse link
G Smarcad1 SWI/SNF-related, matrix-associated actin-dependent regulator of chromatin, subfamily a, containing DEAD/H box 1 ISO (PMID:21549307) UniProtKB PMID:21549307 NCBI chrNW_004936687:1,728,848...1,803,992 JBrowse link
histone H4 deacetylation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Baz2a bromodomain adjacent to zinc finger domain 2A ISO (MGI:MGI:3653583|PMID:16678107) MGI PMID:16678107 MGI:MGI:3653583 NCBI chrNW_004936646:914,944...949,057 JBrowse link
G Hdac1 histone deacetylase 1 ISO (MGI:MGI:5567917|PMID:15226430)
(PMID:12590135)
UniProtKB
BHF-UCL
PMID:12590135, PMID:15226430 MGI:MGI:5567917 NCBI chrNW_004936474:15,320,635...15,351,418 JBrowse link
G Hdac2 histone deacetylase 2 ISO (MGI:MGI:5567917|PMID:15226430) UniProtKB PMID:15226430 MGI:MGI:5567917 NCBI chrNW_004936679:2,448,676...2,474,641 JBrowse link
G Hdac3 histone deacetylase 3 ISO (MGI:MGI:5902654|PMID:27798112) MGI PMID:27798112 MGI:MGI:5902654 NCBI chrNW_004936504:12,530,546...12,546,556 JBrowse link
G Hdac4 histone deacetylase 4 ISO (PMID:12590135) BHF-UCL PMID:12590135 NCBI chrNW_004936745:1,730,743...1,942,071 JBrowse link
G Hdac9 histone deacetylase 9 ISO (PMID:12590135) BHF-UCL PMID:12590135 NCBI chrNW_004936546:4,398,003...5,247,649 JBrowse link
G Rcor1 REST corepressor 1 ISO (PMID:17555596) UniProtKB PMID:17555596 NCBI chrNW_004936835:747,758...798,505 JBrowse link
G Rest RE1 silencing transcription factor ISO (PMID:17555596) UniProtKB PMID:17555596 NCBI chrNW_004936482:19,018,454...19,040,438 JBrowse link
G Sirt2 sirtuin 2 ISO (PMID:16648462), (PMID:17488717)
(MGI:MGI:5567889|PMID:24334550)
UniProtKB PMID:16648462, PMID:17488717, PMID:24334550 MGI:MGI:5567889 NCBI chrNW_004936661:1,828,868...1,849,892 JBrowse link
G Smarcad1 SWI/SNF-related, matrix-associated actin-dependent regulator of chromatin, subfamily a, containing DEAD/H box 1 ISO (PMID:21549307) UniProtKB PMID:21549307 NCBI chrNW_004936687:1,728,848...1,803,992 JBrowse link
histone H4-K12 deacetylation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Hdac3 histone deacetylase 3 ISO (MGI:MGI:5902654|PMID:27798112) MGI PMID:27798112 MGI:MGI:5902654 NCBI chrNW_004936504:12,530,546...12,546,556 JBrowse link
histone H4-K16 deacetylation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Hdac9 histone deacetylase 9 ISO (PMID:28855441) ARUK-UCL PMID:28855441 NCBI chrNW_004936546:4,398,003...5,247,649 JBrowse link
negative regulation of histone deacetylase activity term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Kdm5a lysine demethylase 5A ISO (MGI:MGI:5288521|PMID:21960634) UniProtKB PMID:21960634 MGI:MGI:5288521 NCBI chrNW_004936606:486,424...570,546 JBrowse link
G Sphk2 sphingosine kinase 2 ISO (PMID:19729656) UniProt PMID:19729656 NCBI chrNW_004936664:2,668,708...2,676,608 JBrowse link
negative regulation of histone deacetylation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Foxp3 forkhead box P3 ISO (PMID:19276356) BHF-UCL PMID:19276356 NCBI chrNW_004936721:1,118,376...1,125,282 JBrowse link
G Prmt6 protein arginine methyltransferase 6 ISO (PMID:30420520) UniProt PMID:30420520 NCBI chrNW_004936731:1,262,335...1,268,200 JBrowse link
G Sphk2 sphingosine kinase 2 ISO (PMID:19729656) UniProt PMID:19729656 NCBI chrNW_004936664:2,668,708...2,676,608 JBrowse link
positive regulation of histone deacetylase activity term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G CUNH6orf89 chromosome unknown C6orf89 homolog ISO (PMID:23460338) UniProtKB PMID:23460338 NCBI chrNW_004936476:22,504,741...22,544,970 JBrowse link
G Lrrk2 leucine rich repeat kinase 2 ISO (MGI:MGI:5902654|PMID:27798112) MGI PMID:27798112 MGI:MGI:5902654 NCBI chrNW_004936607:628,469...761,117 JBrowse link
G Pink1 PTEN induced kinase 1 ISO (MGI:MGI:5617128|PMID:25305081) MGI PMID:25305081 MGI:MGI:5617128 NCBI chrNW_004936474:6,574,471...6,589,478 JBrowse link
G Prkd1 protein kinase D1 ISO (PMID:20497126) BHF-UCL PMID:20497126 NCBI chrNW_004936494:4,469,092...4,601,183 JBrowse link
G Prkd2 protein kinase D2 ISO (PMID:20497126) BHF-UCL PMID:20497126 NCBI chrNW_004936664:524,532...551,451 JBrowse link
G Vegfa vascular endothelial growth factor A ISO (PMID:20497126) BHF-UCL PMID:20497126 NCBI chrNW_004936476:16,245,134...16,261,180 JBrowse link
positive regulation of histone deacetylation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Akap8 A-kinase anchoring protein 8 ISO (PMID:16980585) UniProtKB PMID:16980585 NCBI chrNW_004936596:5,123,988...5,142,326 JBrowse link
G Akap8l A-kinase anchoring protein 8 like ISO (PMID:16980585) UniProtKB PMID:16980585 NCBI chrNW_004936596:5,088,260...5,123,735 JBrowse link
G Bcl6 BCL6 transcription repressor ISO (MGI:MGI:5493185|PMID:23160044) MGI PMID:23160044 MGI:MGI:5493185 NCBI chrNW_004936578:2,371,976...2,395,034 JBrowse link
G Ctbp1 C-terminal binding protein 1 ISO (PMID:21102443) BHF-UCL PMID:21102443 NCBI chrNW_004936477:22,032,712...22,055,160 JBrowse link
G Ing2 inhibitor of growth family member 2 ISO (MGI:MGI:4867787|PMID:21124965) BHF-UCL PMID:21124965 MGI:MGI:4867787 NCBI chrNW_004936554:5,585,953...5,593,536 JBrowse link
G Jdp2 Jun dimerization protein 2 ISO (MGI:MGI:3807603|PMID:17464331) MGI PMID:17464331 MGI:MGI:3807603 NCBI chrNW_004936488:4,523,879...4,553,028 JBrowse link
G Lpin1 lipin 1 ISO (MGI:MGI:4819323|PMID:20385772) MGI PMID:20385772 MGI:MGI:4819323 NCBI chrNW_004936532:7,596,279...7,654,139 JBrowse link
G Ncor1 nuclear receptor corepressor 1 ISO (MGI:MGI:3821398|PMID:19037247) MGI PMID:19037247 MGI:MGI:3821398 NCBI chrNW_004936821:382,756...538,254 JBrowse link
G Nipbl NIPBL cohesin loading factor ISO (PMID:18854353) BHF-UCL PMID:18854353 NCBI chrNW_004936518:4,870,686...5,041,099 JBrowse link
G Pml PML nuclear body scaffold ISO (PMID:11259576) UniProtKB PMID:11259576 NCBI chrNW_004936471:33,135,186...33,173,218 JBrowse link
G Sdr16c5 short chain dehydrogenase/reductase family 16C member 5 ISO (PMID:16691198) CAFA PMID:16691198 NCBI chrNW_004936496:2,919,611...2,937,274 JBrowse link
G Srebf1 sterol regulatory element binding transcription factor 1 ISO (MGI:MGI:3760208|PMID:17636037) MGI PMID:17636037 MGI:MGI:3760208 NCBI chrNW_004936741:1,408,669...1,419,717 JBrowse link
G Tgfb1 transforming growth factor beta 1 ISO (MGI:MGI:3528807|PMID:15657445), (MGI:MGI:3584056|PMID:15990875) MGI PMID:15657445, PMID:15990875 MGI:MGI:3528807, MGI:MGI:3584056 NCBI chrNW_004936661:3,742,080...3,758,266 JBrowse link
G Tp53 tumor protein p53 ISO (MGI:MGI:3528807|PMID:15657445) MGI PMID:15657445 MGI:MGI:3528807 NCBI chrNW_004936595:919,807...935,367 JBrowse link
G Zbtb7b zinc finger and BTB domain containing 7B ISO (MGI:MGI:5446998|PMID:22730529) UniProtKB PMID:22730529 MGI:MGI:5446998 NCBI chrNW_004936580:4,546,139...4,560,157 JBrowse link
regulation of histone deacetylation term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Tada2a transcriptional adaptor 2A ISO (MGI:MGI:4462728|PMID:20562830) MGI PMID:20562830 MGI:MGI:4462728 NCBI chrNW_004936490:873,675...924,582 JBrowse link
G Tada3 transcriptional adaptor 3 ISO (MGI:MGI:4462728|PMID:20562830) MGI PMID:20562830 MGI:MGI:4462728 NCBI chrNW_004936602:3,375,971...3,388,787 JBrowse link
G Znhit1 zinc finger HIT-type containing 1 ISO (MGI:MGI:3851280|PMID:19501046) MGI PMID:19501046 MGI:MGI:3851280 NCBI chrNW_004936543:1,098,095...1,104,731 JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 11968
    cellular process 11136
      cellular component organization or biogenesis 4888
        cellular component organization 4810
          chromatin organization 543
            covalent chromatin modification 409
              histone modification 396
                histone deacetylation 58
                  histone H3 deacetylation + 14
                  histone H4 deacetylation + 10
                  histone deacetylation at centromere + 0
                  negative regulation of histone deacetylation + 4
                  positive regulation of histone deacetylation + 21
                  regulation of histone deacetylation + 28
Path 2
Term Annotations click to browse term
  biological_process 11968
    metabolic process 7653
      organic substance metabolic process 7353
        macromolecule metabolic process 6381
          macromolecule modification 3026
            protein modification process 2900
              cellular protein modification process 2900
                protein deacylation 94
                  protein deacetylation 84
                    histone deacetylation 58
                      histone H3 deacetylation + 14
                      histone H4 deacetylation + 10
                      histone deacetylation at centromere + 0
                      negative regulation of histone deacetylation + 4
                      positive regulation of histone deacetylation + 21
                      regulation of histone deacetylation + 28
paths to the root

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RGD is funded by grant HL64541 from the National Heart, Lung, and Blood Institute on behalf of the NIH.