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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_004955458:4,149,610...4,186,647 JBrowse link
G Hdac1 histone deacetylase 1 ISO (PMID:19182791) UniProtKB PMID:19182791 NCBI chrNW_004955452:10,636,366...10,668,873 JBrowse link
G Hdac10 histone deacetylase 10 ISO (PMID:11739383), (PMID:11861901) UniProtKB PMID:11739383, PMID:11861901 NCBI chrNW_004955413:33,272,600...33,277,893 JBrowse link
G Hdac11 histone deacetylase 11 ISO (PMID:11948178) UniProtKB PMID:11948178 NCBI chrNW_004955429:12,890,939...12,907,749 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_004955526:2,739,099...2,759,640 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_004955415:12,138,520...12,154,234 JBrowse link
G Hdac4 histone deacetylase 4 ISO (PMID:18850004)
(PMID:10869435)
BHF-UCL PMID:10869435, PMID:18850004 NCBI chrNW_004955542:1,629,691...1,886,160 JBrowse link
G Hdac5 histone deacetylase 5 ISO (PMID:10869435) BHF-UCL PMID:10869435 NCBI chrNW_004955451:17,223,217...17,246,451 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_004955543:348,314...378,391 JBrowse link
G Hdac9 histone deacetylase 9 ISO (PMID:11535832) BHF-UCL PMID:11535832 NCBI chrNW_004955410:21,046,312...21,932,029 JBrowse link
G Hopx HOP homeobox ISO (MGI:MGI:3712793|PMID:12975471) MGI PMID:12975471 MGI:MGI:3712793 NCBI chrNW_004955447:14,417,014...14,417,797 JBrowse link
G Mier1 MIER1 transcriptional regulator ISO (PMID:28046085) UniProtKB PMID:28046085 NCBI chrNW_004955423:23,973,062...24,027,961 JBrowse link
G Mier2 MIER family member 2 ISO (PMID:28046085) UniProtKB PMID:28046085 NCBI chrNW_004955495:7,279,507...7,300,202 JBrowse link
G Mier3 MIER family member 3 NOT ISO (PMID:28046085) UniProtKB PMID:28046085 NCBI chrNW_004955446:10,962,336...10,992,645 JBrowse link
G Morf4l1 mortality factor 4 like 1 ISO (PMID:14966270) UniProtKB PMID:14966270 NCBI chrNW_004955533:14,770...28,290 JBrowse link
G Phb prohibitin ISO (PMID:12466959) UniProtKB PMID:12466959 NCBI chrNW_004955451:12,110,290...12,119,870 JBrowse link
G Prdm5 PR/SET domain 5 ISO (PMID:17636019) UniProtKB PMID:17636019 NCBI chrNW_004955428:19,684,721...19,881,716 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_004955425:20,280,725...20,307,663 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_004955468:626,365...644,441 JBrowse link
G Suds3 SDS3 homolog, SIN3A corepressor complex component ISO (PMID:21239494) UniProtKB PMID:21239494 NCBI chrNW_004955455:12,981,899...13,017,194 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_004955438:14,405,415...14,443,457 JBrowse link
G Elk4 ETS transcription factor ELK4 ISO (PMID:22722849) UniProtKB PMID:22722849 NCBI chrNW_004955406:41,325,921...41,333,503 JBrowse link
G Hdac1 histone deacetylase 1 ISO (MGI:MGI:5567917|PMID:15226430)
(PMID:12590135)
UniProtKB
RGD
BHF-UCL
PMID:12590135, PMID:15226430, PMID:19765194 MGI:MGI:5567917, RGD:2316171 NCBI chrNW_004955452:10,636,366...10,668,873 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_004955526:2,739,099...2,759,640 JBrowse link
G Hdac3 histone deacetylase 3 ISO RGD PMID:17079677 RGD:5688291 NCBI chrNW_004955415:12,138,520...12,154,234 JBrowse link
G Hdac4 histone deacetylase 4 ISO (PMID:12590135) BHF-UCL PMID:12590135 NCBI chrNW_004955542:1,629,691...1,886,160 JBrowse link
G Hdac9 histone deacetylase 9 ISO (PMID:12590135) BHF-UCL PMID:12590135 NCBI chrNW_004955410:21,046,312...21,932,029 JBrowse link
G Per1 period circadian regulator 1 ISO (MGI:MGI:5014424|PMID:21680841) UniProtKB PMID:21680841 MGI:MGI:5014424 NCBI chrNW_004955467:8,798,436...8,813,369 JBrowse link
G Per2 period circadian regulator 2 ISO (MGI:MGI:5014424|PMID:21680841) UniProtKB PMID:21680841 MGI:MGI:5014424 NCBI chrNW_004955542:2,331,547...2,369,011 JBrowse link
G Sfpq splicing factor proline and glutamine rich ISO (MGI:MGI:5014424|PMID:21680841) UniProtKB PMID:21680841 MGI:MGI:5014424 NCBI chrNW_004955452:13,267,968...13,283,823 JBrowse link
G Sirt1 sirtuin 1 ISO (PMID:17505061)
(PMID:20027304)
BHF-UCL
RGD
PMID:17505061, PMID:20027304, PMID:20089851 RGD:2316169 NCBI chrNW_004955425:20,280,725...20,307,663 JBrowse link
G Sirt2 sirtuin 2 ISO (PMID:23908241)
(MGI:MGI:5502462|PMID:23908241)
UniProtKB PMID:23908241 MGI:MGI:5502462 NCBI chrNW_004955468:626,365...644,441 JBrowse link
G Sirt7 sirtuin 7 ISO (PMID:22722849), (PMID:26907567), (PMID:28655758), (PMID:30420520), (PMID:30653310)
(MGI:MGI:5789069|PMID:27225932), (MGI:MGI:6377981|PMID:31226208), (MGI:MGI:6378020|PMID:31256246)
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_004955506:1,252,271...1,258,728 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_004955458:4,149,610...4,186,647 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_004955452:10,636,366...10,668,873 JBrowse link
G Hdac2 histone deacetylase 2 ISO (MGI:MGI:5567917|PMID:15226430) UniProtKB PMID:15226430 MGI:MGI:5567917 NCBI chrNW_004955526:2,739,099...2,759,640 JBrowse link
G Hdac3 histone deacetylase 3 ISO (MGI:MGI:5902654|PMID:27798112) MGI PMID:27798112 MGI:MGI:5902654 NCBI chrNW_004955415:12,138,520...12,154,234 JBrowse link
G Hdac4 histone deacetylase 4 ISO (PMID:12590135) BHF-UCL PMID:12590135 NCBI chrNW_004955542:1,629,691...1,886,160 JBrowse link
G Hdac9 histone deacetylase 9 ISO (PMID:12590135) BHF-UCL PMID:12590135 NCBI chrNW_004955410:21,046,312...21,932,029 JBrowse link
G Rcor1 REST corepressor 1 ISO (PMID:17555596) UniProtKB PMID:17555596 NCBI chrNW_004955538:1,774,910...1,880,550 JBrowse link
G Sirt2 sirtuin 2 ISO (MGI:MGI:5567889|PMID:24334550)
(PMID:16648462), (PMID:17488717)
UniProtKB PMID:16648462, PMID:17488717, PMID:24334550 MGI:MGI:5567889 NCBI chrNW_004955468:626,365...644,441 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_004955415:12,138,520...12,154,234 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_004955410:21,046,312...21,932,029 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_004955454:6,774,308...6,865,047 JBrowse link
G Sphk2 sphingosine kinase 2 ISO (PMID:19729656) UniProt PMID:19729656 NCBI chrNW_004955559:1,921,479...1,929,450 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_004955543:731,707...742,606 JBrowse link
G Prmt6 protein arginine methyltransferase 6 ISO (PMID:30420520) UniProt PMID:30420520 NCBI chrNW_004955435:10,816,787...10,818,047 JBrowse link
G Sphk2 sphingosine kinase 2 ISO (PMID:19729656) UniProt PMID:19729656 NCBI chrNW_004955559:1,921,479...1,929,450 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 LOC102023844 chromosome unknown open reading frame, human C6orf89 ISO (PMID:23460338) UniProtKB PMID:23460338 NCBI chrNW_004955437:6,087,297...6,124,219 JBrowse link
G Lrrk2 leucine rich repeat kinase 2 ISO (MGI:MGI:5902654|PMID:27798112) MGI PMID:27798112 MGI:MGI:5902654 NCBI chrNW_004955505:84,324...216,923 JBrowse link
G Pink1 PTEN induced kinase 1 ISO (MGI:MGI:5617128|PMID:25305081) MGI PMID:25305081 MGI:MGI:5617128 NCBI chrNW_004955452:1,171,115...1,186,338 JBrowse link
G Prkd1 protein kinase D1 ISO (PMID:20497126) BHF-UCL PMID:20497126 NCBI chrNW_004955409:30,554,095...30,860,588 JBrowse link
G Prkd2 protein kinase D2 ISO (PMID:20497126) BHF-UCL PMID:20497126 NCBI chrNW_004955574:723,933...750,794 JBrowse link
G Vegfa vascular endothelial growth factor A ISO (PMID:20497126) BHF-UCL PMID:20497126 NCBI chrNW_004955437:9,527,445...9,541,908 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_004955495:7,874,655...7,893,209 JBrowse link
G Akap8l A-kinase anchoring protein 8 like ISO (PMID:16980585) UniProtKB PMID:16980585 NCBI chrNW_004955495:7,839,339...7,874,432 JBrowse link
G Bcl6 BCL6 transcription repressor ISO (MGI:MGI:5493185|PMID:23160044) MGI PMID:23160044 MGI:MGI:5493185 NCBI chrNW_004955420:19,998,960...20,021,200 JBrowse link
G Ctbp1 C-terminal binding protein 1 ISO (PMID:21102443) BHF-UCL PMID:21102443 NCBI chrNW_004955514:630,168...652,817 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_004955403:25,325,600...25,331,175 JBrowse link
G Jdp2 Jun dimerization protein 2 ISO (MGI:MGI:3807603|PMID:17464331) MGI PMID:17464331 MGI:MGI:3807603 NCBI chrNW_004955523:140,546...169,769 JBrowse link
G Lpin1 lipin 1 ISO (MGI:MGI:4819323|PMID:20385772) MGI PMID:20385772 MGI:MGI:4819323 NCBI chrNW_004955487:6,139,188...6,207,316 JBrowse link
G Ncor1 nuclear receptor corepressor 1 ISO (MGI:MGI:3821398|PMID:19037247) MGI PMID:19037247 MGI:MGI:3821398 NCBI chrNW_004955467:1,408,292...1,568,539 JBrowse link
G Nipbl NIPBL cohesin loading factor ISO (PMID:18854353) BHF-UCL PMID:18854353 NCBI chrNW_004955426:21,666,958...21,841,515 JBrowse link
G Pml PML nuclear body scaffold ISO (PMID:11259576) UniProtKB PMID:11259576 NCBI chrNW_004955450:3,654,854...3,692,057 JBrowse link
G Sdr16c5 short chain dehydrogenase/reductase family 16C member 5 ISO (PMID:16691198) CAFA PMID:16691198 NCBI chrNW_004955454:15,339,353...15,349,180 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_004955577:171,425...183,669 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_004955555:274,405...288,441 JBrowse link
G Tp53 tumor protein p53 ISO (MGI:MGI:3528807|PMID:15657445) MGI PMID:15657445 MGI:MGI:3528807 NCBI chrNW_004955467:9,241,391...9,256,716 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_004955545:1,504,656...1,519,954 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_004955451:548,373...599,739 JBrowse link
G Tada3 transcriptional adaptor 3 ISO (MGI:MGI:4462728|PMID:20562830) MGI PMID:20562830 MGI:MGI:4462728 NCBI chrNW_004955561:1,304,222...1,314,092 JBrowse link
G Znhit1 zinc finger HIT-type containing 1 ISO (MGI:MGI:3851280|PMID:19501046) MGI PMID:19501046 MGI:MGI:3851280 NCBI chrNW_004955456:16,070,622...16,082,286 JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 11857
    cellular process 11058
      cellular component organization or biogenesis 4836
        cellular component organization 4756
          chromatin organization 528
            covalent chromatin modification 400
              histone modification 387
                histone deacetylation 55
                  histone H3 deacetylation + 13
                  histone H4 deacetylation + 8
                  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 11857
    metabolic process 7593
      organic substance metabolic process 7299
        macromolecule metabolic process 6337
          macromolecule modification 2991
            protein modification process 2865
              cellular protein modification process 2865
                protein deacylation 89
                  protein deacetylation 79
                    histone deacetylation 55
                      histone H3 deacetylation + 13
                      histone H4 deacetylation + 8
                      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.