dbEM
A Database of Epigenetic Modifiers
Cite: Nanda JS, Kumar R, Raghava GP. (2016) dbEM: A database of epigenetic modifiers curated from cancerous and normal genomes. Sci Rep. 6:19340.
Protein: HDAC3 |
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Mutation Data (+)
# Cell Line/Tumor sample Tissue of Origin cDNA change Protein change Source FATHMM Prediction PolyPhen2 Prediction 1 CW2 LARGE INTESTINE c.901C>T p.R301* CCLE NP NP 2 DMS53 LUNG c.362A>C p.K121T CCLE PASSENGER/OTHER Possibly Damaging 3 EBC1 LUNG c.1006G>T p.A336S CCLE NP NP 4 EN ENDOMETRIUM c.1075A>G p.N359D CCLE NP NP 5 HCC1428 BREAST c.748_757delATCCTGAGGG p.I250fs CCLE NP NP 6 HDLM2 HAEMATOPOIETIC AND LYMPHOID TISSUE c.68C>G p.P23R CCLE PASSENGER/OTHER Probably Damaging 7 HEC251 ENDOMETRIUM c.1075A>G p.N359D CCLE NP NP 8 HEC251 ENDOMETRIUM c.608T>C p.V203A CCLE NP NP 9 HEC59 ENDOMETRIUM c.1075A>G p.N359D CCLE NP NP 10 HEC6 ENDOMETRIUM c.1199C>A p.P400H CCLE PASSENGER/OTHER Benign 11 HRT18 LARGE INTESTINE c.571T>C p.S191P CCLE CANCER Probably Damaging 12 HT115 LARGE INTESTINE c.1261G>T p.D421Y CCLE PASSENGER/OTHER Probably Damaging 13 KYSE70 OESOPHAGUS c.838G>A p.V280I CCLE PASSENGER/OTHER Probably Damaging 14 LMSU STOMACH c.1075A>G p.N359D CCLE NP NP 15 LS411N LARGE INTESTINE c.1060_splice p.Y354_splice CCLE NP NP 16 NCIH2291 LUNG c.804_804delC p.S268fs CCLE NP NP 17 NCIH650 LUNG c.1150C>T p.L384F CCLE PASSENGER/OTHER Possibly Damaging 18 OVMANA OVARY c.328G>A p.A110T CCLE PASSENGER/OTHER Probably Damaging 19 PL21 HAEMATOPOIETIC AND LYMPHOID TISSUE c.1075A>G p.N359D CCLE NP NP 20 RKO LARGE INTESTINE c.746G>T p.R249L CCLE NP NP 21 SHP77 LUNG c.1170_1171TG>CA p.D391N CCLE PASSENGER/OTHER Possibly Damaging 22 SKLU1 LUNG c.1033C>T p.R345C CCLE PASSENGER/OTHER Probably Damaging 23 SKMEL24 SKIN c.610G>A p.E204K CCLE NP NP 24 SNU1040 LARGE INTESTINE c.1027A>G p.K343E CCLE NP NP 25 SNU175 LARGE INTESTINE c.571T>C p.S191P CCLE CANCER Probably Damaging 26 SNU46 UPPER AERODIGESTIVE TRACT c.1189G>T p.E397* CCLE NP NP 27 SNU668 STOMACH c.1010C>G p.A337G CCLE NP NP 28 TUHR10TKB KIDNEY c.7A>G p.K3E CCLE PASSENGER/OTHER Benign 29 UMUC3 URINARY TRACT c.704G>T p.R235L CCLE NP Probably Damaging 30 587226 LARGE INTESTINE c.71T>C p.M24T COSMIC PASSENGER/OTHER Probably Damaging 31 HN_62860 UPPER AERODIGESTIVE TRACT c.902G>T p.R301L COSMIC PASSENGER/OTHER Probably Damaging 32 LAU63 SKIN c.793C>T p.R265* COSMIC NP NP 33 LAU63 SKIN c.820C>T p.R274* COSMIC NP NP 34 LUAD-NYU315 LUNG c.334C>T p.L112L COSMIC NP NP 35 ME009T SKIN c.272G>A p.G91D COSMIC PASSENGER/OTHER Probably Damaging 36 PR-09-5702 PROSTATE c.277G>A p.D93N COSMIC PASSENGER/OTHER Possibly Damaging 37 S00936 LUNG c.313T>C p.S105P COSMIC PASSENGER/OTHER Probably Damaging 38 TCGA-24-1469-01 OVARY c.526G>C p.G176R COSMIC CANCER Probably Damaging 39 TCGA-33-4586-01 LUNG c.949G>T p.E317* COSMIC NP NP 40 TCGA-A5-A0GP-01 ENDOMETRIUM c.1041G>T p.E347D COSMIC PASSENGER/OTHER Benign 41 TCGA-A7-A0CE-01 BREAST c.1232A>G p.N411S COSMIC PASSENGER/OTHER Possibly Damaging 42 TCGA-AA-3521-01 LARGE INTESTINE c.316C>T p.R106C COSMIC PASSENGER/OTHER Probably Damaging 43 TCGA-AA-3947-01 LARGE INTESTINE c.1168A>G p.T390A COSMIC PASSENGER/OTHER Benign 44 TCGA-AB-2819-03 HAEMATOPOIETIC AND LYMPHOID TISSUE c.443A>G p.N148S COSMIC PASSENGER/OTHER Probably Damaging 45 TCGA-AP-A056-01 ENDOMETRIUM c.328G>A p.A110T COSMIC PASSENGER/OTHER Probably Damaging 46 TCGA-AP-A059-01 ENDOMETRIUM c.915C>G p.R305R COSMIC NP NP 47 TCGA-AP-A0LM-01 ENDOMETRIUM c.132G>T p.K44N COSMIC PASSENGER/OTHER Probably Damaging 48 TCGA-AP-A0LM-01 ENDOMETRIUM c.155A>G p.Q52R COSMIC PASSENGER/OTHER Benign 49 TCGA-AP-A0LM-01 ENDOMETRIUM c.988G>A p.E330K COSMIC PASSENGER/OTHER Probably Damaging 50 TCGA-AX-A0J1-01 ENDOMETRIUM c.510C>T p.D170D COSMIC NP NP 51 TCGA-AX-A0J1-01 ENDOMETRIUM c.750G>A p.T250T COSMIC NP NP 52 TCGA-B5-A11E-01 ENDOMETRIUM c.268G>A p.V90I COSMIC PASSENGER/OTHER Benign 53 TCGA-B5-A11E-01 ENDOMETRIUM c.328G>A p.A110T COSMIC PASSENGER/OTHER Probably Damaging 54 TCGA-B5-A11N-01 ENDOMETRIUM c.295G>A p.G99R COSMIC PASSENGER/OTHER Probably Damaging 55 TCGA-BS-A0UV-01 ENDOMETRIUM c.295G>A p.G99R COSMIC PASSENGER/OTHER Probably Damaging 56 TCGA-D1-A17D-01 ENDOMETRIUM c.643C>T p.R215C COSMIC PASSENGER/OTHER Probably Damaging 57 TCGA-D1-A17Q-01 ENDOMETRIUM c.221G>A p.S74N COSMIC PASSENGER/OTHER Benign 58 TCGA-D5-6927-01 LARGE INTESTINE c.838G>A p.V280I COSMIC PASSENGER/OTHER Probably Damaging 59 TCGA-E2-A155-01 BREAST c.1012C>T p.L338F COSMIC PASSENGER/OTHER Probably Damaging 60 TCGA-FD-A3B3-01 URINARY TRACT c.567G>A p.T189T COSMIC NP NP 61 YUGOE SKIN c.793C>T p.R265* COSMIC NP NP 62 YULAN SKIN c.314C>T p.S105L COSMIC PASSENGER/OTHER Possibly Damaging 63 pfg001T STOMACH c.273C>T p.G91G COSMIC NP NP
*NP: Not Predicted -
Copy number variation and expression profile (+)
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Gene Essentiality Data (+)
Note: Lower the GARP score (more negative), higher the essentiality of the gene. P-value tells about the significane of GARP score.test -
Tertiary structure (+)
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Structure Domains (+)
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Sequence Alignment (+)
Users must enabled the Java in their browser to see sequence alignments.
Users can also download Java from here.1. Sequence alignment with 1000 genome variations:
Click on button to get Sequence alignment with Coverage, Consensus and Quality 2. Sequence alignment with CCLE mutants:
Click on button to get Sequence alignment with Coverage, Consensus and Quality 3. Sequence alignment with COSMIC mutants:
Click on button to get Sequence alignment with Coverage, Consensus and Quality 4. Sequence alignment with homologus proteins:
Click on button to get Sequence alignment with Coverage, Consensus and Quality -
Sequence Profiles (+)
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Post Translational Modifications (+)
S. No. Position Amino acid Type 1 404 Y Phosphorylation 2 405 S Phosphorylation 3 424 S Phosphorylation 4 424 S Phosphorylation (CSNK2A1) 5 424 S Phosphorylation 6 44 K Ubiquitylation 7 44 K Ubiquitylation -
Other Databases Link (+)
Proteomics DB COSMIC Gene Atlas STRING PIR HDAC3 HDAC3 HDAC3 ENSP00000302967 QuickGO HGNC Ensembl Genome Browser TreeFam UniProt HDAC3 ENSP00000302967 HDAC3 Expression Atlas Protein Atlas OMIM IntAct PharmGKB HDAC3 ENSP00000302967
