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: HDAC6 |
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Mutation Data (+)
# Cell Line/Tumor sample Tissue of Origin cDNA change Protein change Source FATHMM Prediction PolyPhen2 Prediction 1 2313287 STOMACH c.2247_2247delG p.L749fs CCLE NP NP 2 BCP1 HAEMATOPOIETIC AND LYMPHOID TISSUE c.2513_splice p.K838_splice CCLE NP NP 3 BECKER CENTRAL NERVOUS SYSTEM c.2242C>A p.P748T CCLE CANCER Probably Damaging 4 CCK81 LARGE INTESTINE c.356T>C p.L119P CCLE PASSENGER/OTHER Probably Damaging 5 COLO679 SKIN c.2086G>A p.G696S CCLE CANCER Probably Damaging 6 COV434 OVARY c.2837C>G p.A946G CCLE PASSENGER/OTHER Benign 7 EFO27 OVARY c.1834G>A p.A612T CCLE CANCER Probably Damaging 8 ES2 OVARY c.337C>G p.H113D CCLE PASSENGER/OTHER Benign 9 FU97 STOMACH c.216A>G p.Q72Q CCLE NP NP 10 HEC108 ENDOMETRIUM c.3509A>G p.H1170R CCLE PASSENGER/OTHER Probably Damaging 11 HEC251 ENDOMETRIUM c.2609G>A p.R870Q CCLE PASSENGER/OTHER Benign 12 HEC265 ENDOMETRIUM c.923C>A p.P308H CCLE CANCER Probably Damaging 13 HEC6 ENDOMETRIUM c.2278G>A p.A760T CCLE CANCER Probably Damaging 14 JHUEM2 ENDOMETRIUM c.3092_3092delC p.T1031fs CCLE NP NP 15 KCL22 HAEMATOPOIETIC AND LYMPHOID TISSUE c.700G>A p.A234T CCLE CANCER Probably Damaging 16 KYSE150 OESOPHAGUS c.3203C>T p.S1068F CCLE PASSENGER/OTHER Probably Damaging 17 KYSE450 OESOPHAGUS c.133C>T p.P45S CCLE PASSENGER/OTHER Probably Damaging 18 L540 HAEMATOPOIETIC AND LYMPHOID TISSUE c.1308G>T p.E436D CCLE PASSENGER/OTHER Possibly Damaging 19 MDAMB453 BREAST c.3367_3368CC>GT p.P1123V CCLE PASSENGER/OTHER Probably Damaging 20 MELJUSO SKIN c.1791_splice p.E597_splice CCLE NP NP 21 NALM6 HAEMATOPOIETIC AND LYMPHOID TISSUE c.1688G>C p.S563T CCLE CANCER Benign 22 NCIH1184 LUNG c.2917G>C p.G973R CCLE PASSENGER/OTHER Possibly Damaging 23 NCIH2286 LUNG c.1646G>C p.R549P CCLE PASSENGER/OTHER Probably Damaging 24 OC316 OVARY c.2309C>T p.A770V CCLE CANCER Probably Damaging 25 PECAPJ41CLONED2 UPPER AERODIGESTIVE TRACT c.333G>A p.R111R CCLE NP NP 26 RCHACV HAEMATOPOIETIC AND LYMPHOID TISSUE c.400C>T p.R134W CCLE PASSENGER/OTHER Probably Damaging 27 SNU175 LARGE INTESTINE c.1168G>A p.A390T CCLE PASSENGER/OTHER Possibly Damaging 28 SNU175 LARGE INTESTINE c.1849G>A p.A617T CCLE CANCER Probably Damaging 29 SNU520 STOMACH c.3566A>G p.Y1189C CCLE PASSENGER/OTHER Probably Damaging 30 SNU620 STOMACH c.658A>G p.S220G CCLE CANCER Benign 31 SNUC2A LARGE INTESTINE c.1422G>A p.W474* CCLE NP NP 32 SW48 LARGE INTESTINE c.1183G>A p.V395I CCLE CANCER Probably Damaging 33 SW48 LARGE INTESTINE c.11C>T p.T4I CCLE PASSENGER/OTHER Probably Damaging 34 VMRCLCD LUNG c.1756G>T p.A586S CCLE PASSENGER/OTHER Benign 35 ZR7530 BREAST c.3451G>A p.V1151I CCLE PASSENGER/OTHER Possibly Damaging 36 001 KIDNEY c.1765C>A p.L589M COSMIC PASSENGER/OTHER Probably Damaging 37 56506 MENINGES c.2892G>T p.Q964H COSMIC PASSENGER/OTHER Benign 38 578 UPPER AERODIGESTIVE TRACT c.619A>T p.M207L COSMIC PASSENGER/OTHER Benign 39 587238 LARGE INTESTINE c.1514A>C p.Q505P COSMIC PASSENGER/OTHER Probably Damaging 40 587284 LARGE INTESTINE c.649G>A p.A217T COSMIC CANCER Probably Damaging 41 8015299 PANCREAS c.144G>A p.A48A COSMIC NP NP 42 E5 URINARY TRACT c.1834G>T p.A612S COSMIC CANCER Probably Damaging 43 ESO15T OESOPHAGUS c.1924C>T p.R642W COSMIC CANCER Probably Damaging 44 HCC25T LIVER c.388T>A p.S130T COSMIC CANCER Benign 45 HCC35T LIVER c.3436C>T p.L1146F COSMIC PASSENGER/OTHER Probably Damaging 46 HCC56T LIVER c.1155C>G p.G385G COSMIC NP NP 47 HCC86T LIVER c.1973A>T p.H658L COSMIC PASSENGER/OTHER Probably Damaging 48 HCC86T LIVER c.1974C>A p.H658Q COSMIC PASSENGER/OTHER Probably Damaging 49 LC_S6 LUNG c.546_547delCT p.A184fs*18 COSMIC NP NP 50 LUAD-B01169 LUNG c.265G>T p.V89L COSMIC CANCER Benign 51 LUAD-CHTN-MAD06-00668 LUNG c.3624G>T p.G1208G COSMIC NP NP 52 LUAD-E01014 LUNG c.1381G>A p.E461K COSMIC PASSENGER/OTHER Possibly Damaging 53 LUAD-NYU508 LUNG c.3074C>T p.S1025L COSMIC PASSENGER/OTHER Benign 54 LUAD-RT-S01709 LUNG c.1527G>C p.R509R COSMIC NP NP 55 LUAD-RT-S01709 LUNG c.671G>T p.G224V COSMIC CANCER Probably Damaging 56 LUAD-S01315 LUNG c.1888G>A p.A630T COSMIC CANCER Probably Damaging 57 NB-1942 AUTONOMIC GANGLIA c.3606C>A p.A1202A COSMIC NP NP 58 PA285 PANCREAS c.2116A>G p.N706D COSMIC CANCER Probably Damaging 59 S00356 LUNG c.2800C>T p.L934L COSMIC NP NP 60 S00936 LUNG c.1585C>T p.R529C COSMIC PASSENGER/OTHER Probably Damaging 61 S00946 LUNG c.59C>G p.P20R COSMIC PASSENGER/OTHER Benign 62 S01453 LUNG c.2409A>C p.P803P COSMIC NP NP 63 TCGA-05-4405-01 LUNG c.3399T>A p.C1133* COSMIC NP NP 64 TCGA-05-5715-01 LUNG c.2513A>G p.K838R COSMIC PASSENGER/OTHER Possibly Damaging 65 TCGA-13-0904-01 OVARY c.1522T>C p.L508L COSMIC NP NP 66 TCGA-13-0904-01 OVARY c.439C>T p.L147L COSMIC NP NP 67 TCGA-24-1544-01 OVARY c.2242C>A p.P748T COSMIC CANCER Probably Damaging 68 TCGA-29-1775-01 OVARY c.2272G>A p.G758S COSMIC CANCER Probably Damaging 69 TCGA-38-4631-01 LUNG c.317C>G p.P106R COSMIC CANCER Probably Damaging 70 TCGA-42-2590-01 OVARY c.3244G>A p.G1082R COSMIC PASSENGER/OTHER Probably Damaging 71 TCGA-67-3774-01 LUNG c.2409A>C p.P803P COSMIC NP NP 72 TCGA-69-7973-01 LUNG c.2605A>T p.T869S COSMIC PASSENGER/OTHER Benign 73 TCGA-69-7974-01 LUNG c.3636C>T p.P1212P COSMIC NP NP 74 TCGA-75-5146-01 LUNG c.265G>T p.V89L COSMIC CANCER Benign 75 TCGA-A2-A0T0-01 BREAST c.3318T>C p.A1106A COSMIC NP NP 76 TCGA-A3-3324-01 KIDNEY c.1776T>A p.A592A COSMIC NP NP 77 TCGA-A6-2672-01 LARGE INTESTINE c.2274T>C p.G758G COSMIC NP NP 78 TCGA-A6-2676-01 LARGE INTESTINE c.297C>T p.C99C COSMIC NP NP 79 TCGA-A6-5657-01 LARGE INTESTINE c.2244G>T p.P748P COSMIC NP NP 80 TCGA-A8-A08T-01 BREAST c.855C>T p.P285P COSMIC NP NP 81 TCGA-AA-3492-01 LARGE INTESTINE c.2273G>T p.G758V COSMIC CANCER Probably Damaging 82 TCGA-AA-3811-01 LARGE INTESTINE c.1763G>A p.R588H COSMIC PASSENGER/OTHER Probably Damaging 83 TCGA-AA-3845-01 LARGE INTESTINE c.991G>A p.A331T COSMIC PASSENGER/OTHER Possibly Damaging 84 TCGA-AA-3864-01 LARGE INTESTINE c.943C>T p.R315W COSMIC CANCER Probably Damaging 85 TCGA-AA-A010-01 LARGE INTESTINE c.3463C>T p.R1155C COSMIC PASSENGER/OTHER Probably Damaging 86 TCGA-AG-A002-01 LARGE INTESTINE c.134C>A p.P45H COSMIC PASSENGER/OTHER Probably Damaging 87 TCGA-AG-A002-01 LARGE INTESTINE c.3129G>T p.Q1043H COSMIC PASSENGER/OTHER Benign 88 TCGA-AN-A03X-01 BREAST c.552C>A p.A184A COSMIC NP NP 89 TCGA-AO-A0J5-01 BREAST c.1699G>T p.D567Y COSMIC PASSENGER/OTHER Probably Damaging 90 TCGA-AO-A1KT-01 BREAST c.3469A>G p.I1157V COSMIC PASSENGER/OTHER Benign 91 TCGA-AP-A051-01 ENDOMETRIUM c.1716C>T p.C572C COSMIC NP NP 92 TCGA-AP-A051-01 ENDOMETRIUM c.3512C>T p.P1171L COSMIC PASSENGER/OTHER Probably Damaging 93 TCGA-AP-A051-01 ENDOMETRIUM c.853C>A p.P285T COSMIC CANCER Probably Damaging 94 TCGA-AP-A054-01 ENDOMETRIUM c.3542C>T p.A1181V COSMIC PASSENGER/OTHER Benign 95 TCGA-AP-A056-01 ENDOMETRIUM c.2532A>G p.G844G COSMIC NP NP 96 TCGA-AP-A059-01 ENDOMETRIUM c.1182C>T p.G394G COSMIC NP NP 97 TCGA-AP-A059-01 ENDOMETRIUM c.1194G>A p.S398S COSMIC NP NP 98 TCGA-AP-A059-01 ENDOMETRIUM c.2829C>T p.V943V COSMIC NP NP 99 TCGA-AP-A0LD-01 ENDOMETRIUM c.1751G>A p.G584D COSMIC CANCER Probably Damaging 100 TCGA-AP-A0LM-01 ENDOMETRIUM c.3181G>A p.E1061K COSMIC PASSENGER/OTHER Benign 101 TCGA-AR-A0TX-01 BREAST c.2518G>C p.E840Q COSMIC PASSENGER/OTHER Possibly Damaging 102 TCGA-AR-A24H-01 BREAST c.846G>T p.R282S COSMIC PASSENGER/OTHER Benign 103 TCGA-AX-A05Z-01 ENDOMETRIUM c.891C>T p.F297F COSMIC NP NP 104 TCGA-AX-A0J0-01 ENDOMETRIUM c.41G>A p.R14Q COSMIC PASSENGER/OTHER Possibly Damaging 105 TCGA-AX-A0J0-01 ENDOMETRIUM c.477G>T p.M159I COSMIC PASSENGER/OTHER Probably Damaging 106 TCGA-AX-A0J1-01 ENDOMETRIUM c.2126G>A p.R709H COSMIC CANCER Probably Damaging 107 TCGA-B0-4823-01 KIDNEY c.2562G>A p.K854K COSMIC NP NP 108 TCGA-B5-A0JY-01 ENDOMETRIUM c.1298C>T p.P433L COSMIC PASSENGER/OTHER Probably Damaging 109 TCGA-B5-A0JY-01 ENDOMETRIUM c.2611G>T p.E871* COSMIC NP NP 110 TCGA-B5-A11E-01 ENDOMETRIUM c.1121C>T p.A374V COSMIC CANCER Probably Damaging 111 TCGA-B5-A11E-01 ENDOMETRIUM c.1657A>C p.K553Q COSMIC PASSENGER/OTHER Possibly Damaging 112 TCGA-B5-A11E-01 ENDOMETRIUM c.2483G>A p.R828H COSMIC CANCER Benign 113 TCGA-B5-A11E-01 ENDOMETRIUM c.92C>T p.S31L COSMIC PASSENGER/OTHER Benign 114 TCGA-B5-A11E-01 ENDOMETRIUM c.98G>A p.R33Q COSMIC PASSENGER/OTHER Probably Damaging 115 TCGA-BG-A0M4-01 ENDOMETRIUM c.1761C>T p.C587C COSMIC NP NP 116 TCGA-BG-A0MQ-01 ENDOMETRIUM c.2370C>T p.S790S COSMIC NP NP 117 TCGA-BG-A0VZ-01 ENDOMETRIUM c.2162G>A p.R721H COSMIC PASSENGER/OTHER Possibly Damaging 118 TCGA-BH-A0BZ-01 BREAST c.208G>A p.G70R COSMIC PASSENGER/OTHER Possibly Damaging 119 TCGA-BP-5173-01 KIDNEY c.1529T>C p.I510T COSMIC CANCER Probably Damaging 120 TCGA-BP-5187-01 KIDNEY c.1519A>G p.I507V COSMIC PASSENGER/OTHER Benign 121 TCGA-BS-A0TJ-01 ENDOMETRIUM c.1682G>A p.R561H COSMIC PASSENGER/OTHER Probably Damaging 122 TCGA-BS-A0UF-01 ENDOMETRIUM c.533C>T p.P178L COSMIC CANCER Probably Damaging 123 TCGA-BS-A0UV-01 ENDOMETRIUM c.3049G>A p.E1017K COSMIC PASSENGER/OTHER Benign 124 TCGA-BS-A0UV-01 ENDOMETRIUM c.899G>A p.G300D COSMIC CANCER Probably Damaging 125 TCGA-BT-A3PH-01 URINARY TRACT c.2409A>C p.P803P COSMIC NP NP 126 TCGA-C4-A0F1-01 URINARY TRACT c.3040G>T p.G1014W COSMIC PASSENGER/OTHER Benign 127 TCGA-C8-A12P-01 BREAST c.3181G>A p.E1061K COSMIC PASSENGER/OTHER Benign 128 TCGA-CF-A1HS-01 URINARY TRACT c.707G>T p.R236L COSMIC PASSENGER/OTHER Probably Damaging 129 TCGA-CH-5792-01 PROSTATE c.1698T>G p.F566L COSMIC CANCER Possibly Damaging 130 TCGA-CH-5792-01 PROSTATE c.1699G>C p.D567H COSMIC PASSENGER/OTHER Possibly Damaging 131 TCGA-CM-4743-01 LARGE INTESTINE c.2247delG p.G751fs*16 COSMIC NP NP 132 TCGA-CM-6162-01 LARGE INTESTINE c.1374C>T p.S458S COSMIC NP NP 133 TCGA-D1-A103-01 ENDOMETRIUM c.2512A>C p.K838Q COSMIC PASSENGER/OTHER Benign 134 TCGA-D1-A15X-01 ENDOMETRIUM c.2122C>T p.P708S COSMIC CANCER Benign 135 TCGA-D1-A17Q-01 ENDOMETRIUM c.1728C>T p.F576F COSMIC NP NP 136 TCGA-D1-A17Q-01 ENDOMETRIUM c.1867T>C p.F623L COSMIC PASSENGER/OTHER Probably Damaging 137 TCGA-DI-A1NN-01 ENDOMETRIUM c.1072G>A p.A358T COSMIC PASSENGER/OTHER Possibly Damaging 138 TCGA-DK-A3IL-01 URINARY TRACT c.3344A>G p.H1115R COSMIC PASSENGER/OTHER Probably Damaging 139 TCGA-E2-A1LK-01 BREAST c.1806T>A p.A602A COSMIC NP NP 140 TCGA-EI-6507-01 LARGE INTESTINE c.2076C>A p.G692G COSMIC NP NP 141 TCGA-EJ-5525-01 PROSTATE c.1102C>T p.H368Y COSMIC PASSENGER/OTHER Probably Damaging 142 TCGA-G4-6293-01 LARGE INTESTINE c.3040G>A p.G1014R COSMIC PASSENGER/OTHER Benign 143 YUSUBA SKIN c.2012T>G p.L671R COSMIC PASSENGER/OTHER Probably Damaging 144 cSCCP1 SKIN c.1246C>T p.P416S COSMIC CANCER Probably Damaging 145 ccRCC-78 KIDNEY c.1703C>A p.S568Y COSMIC CANCER Probably Damaging 146 pfg024T STOMACH c.649G>A p.A217T COSMIC CANCER Probably Damaging
*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 (+)
$x "); for($d=2;$d<$l777;$d++) { fwrite($FP6,$row6[$d]); fwrite($FP7,"$row6[$d] "); fwrite($FP6,"\t"); } fwrite($FP6,"\n"); fwrite($FP7,""); } fclose($FP6); echo""; } else{echo"
"; ##### table ##### $ptm_tr=file_get_contents("$dir/ptm"); if($ptm_tr != '') { echo"S. No. Position Amino acid Type Post translational modifications are not found!!";} ?> -
Other Databases Link (+)
Proteomics DB COSMIC Gene Atlas STRING PIR HDAC6 HDAC6 HDAC6 ENSP00000334061 Q9UBN7 QuickGO HGNC Ensembl Genome Browser TreeFam UniProt Q9UBN7 HDAC6 ENSP00000334061 HDAC6 Q9UBN7 Expression Atlas Protein Atlas OMIM IntAct PharmGKB HDAC6 ENSP00000334061 300272 Q9UBN7 PA29231
