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: SMYD1 |
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Mutation Data (+)
# Cell Line/Tumor sample Tissue of Origin cDNA change Protein change Source FATHMM Prediction PolyPhen2 Prediction 1 1T SKIN c.898G>A p.E300K COSMIC PASSENGER/OTHER Benign 2 587222 LARGE INTESTINE c.1368C>A p.F456L COSMIC PASSENGER/OTHER Benign 3 587376 LARGE INTESTINE c.575C>T p.A192V COSMIC PASSENGER/OTHER Probably Damaging 4 ESO-051 OESOPHAGUS c.427G>A p.E143K COSMIC PASSENGER/OTHER Possibly Damaging 5 ESO-139 OESOPHAGUS c.1271T>C p.L424P COSMIC PASSENGER/OTHER Probably Damaging 6 ESO-177 OESOPHAGUS c.480G>A p.P160P COSMIC NP NP 7 ESO-874 OESOPHAGUS c.753C>T p.S251S COSMIC NP NP 8 HCC13T LIVER c.335G>A p.W112* COSMIC NP NP 9 HN_62338 UPPER AERODIGESTIVE TRACT c.235C>A p.Q79K COSMIC CANCER Probably Damaging 10 HN_62739 UPPER AERODIGESTIVE TRACT c.418G>T p.G140W COSMIC PASSENGER/OTHER Probably Damaging 11 HN_62861 UPPER AERODIGESTIVE TRACT c.513G>A p.S171S COSMIC NP NP 12 LUAD-5V8LT LUNG c.995G>T p.C332F COSMIC PASSENGER/OTHER Probably Damaging 13 LUAD-D01382 LUNG c.1216G>A p.A406T COSMIC PASSENGER/OTHER Probably Damaging 14 LUAD-F00162 LUNG c.277A>T p.I93F COSMIC PASSENGER/OTHER Benign 15 LUAD-F00368 LUNG c.996C>A p.C332* COSMIC NP NP 16 LUAD-NYU315 LUNG c.550C>G p.L184V COSMIC PASSENGER/OTHER Benign 17 LUAD-RT-S01702 LUNG c.583G>A p.V195I COSMIC PASSENGER/OTHER Possibly Damaging 18 LUAD-RT-S01709 LUNG c.888G>T p.K296N COSMIC PASSENGER/OTHER Possibly Damaging 19 LUAD-RT-S01721 LUNG c.579G>T p.V193V COSMIC NP NP 20 LUAD-S01357 LUNG c.576C>T p.A192A COSMIC NP NP 21 ME024T NS c.859C>T p.L287F COSMIC PASSENGER/OTHER Probably Damaging 22 NB-1942 AUTONOMIC GANGLIA c.668C>A p.A223E COSMIC PASSENGER/OTHER Probably Damaging 23 NCI-H2126 LUNG c.779_795del17 p.E260fs*8 COSMIC NP NP 24 P07-5036 PROSTATE c.390C>T p.D130D COSMIC NP NP 25 PD3992a BREAST c.1074G>A p.S358S COSMIC NP NP 26 PR-05-3440 PROSTATE c.1054C>T p.R352W COSMIC PASSENGER/OTHER Probably Damaging 27 SA092 BREAST c.827G>A p.C276Y COSMIC CANCER Probably Damaging 28 SJMB028 CENTRAL NERVOUS SYSTEM c.998G>A p.R333Q COSMIC PASSENGER/OTHER Possibly Damaging 29 T155 ENDOMETRIUM c.99C>T p.I33I COSMIC NP NP 30 TCGA-05-4250-01 LUNG c.352G>T p.G118C COSMIC PASSENGER/OTHER Probably Damaging 31 TCGA-05-4410-01 LUNG c.1409C>A p.P470H COSMIC PASSENGER/OTHER Probably Damaging 32 TCGA-05-4410-01 LUNG c.654T>C p.N218N COSMIC NP NP 33 TCGA-05-4417-01 LUNG c.1153T>A p.Y385N COSMIC PASSENGER/OTHER Probably Damaging 34 TCGA-23-1123-01 OVARY c.320C>T p.A107V COSMIC PASSENGER/OTHER Possibly Damaging 35 TCGA-24-1470-01 OVARY c.186C>G p.L62L COSMIC NP NP 36 TCGA-39-5022-01 LUNG c.1193G>C p.R398P COSMIC PASSENGER/OTHER Probably Damaging 37 TCGA-50-5044-01 LUNG c.949G>A p.D317N COSMIC PASSENGER/OTHER Benign 38 TCGA-50-5930-01 LUNG c.820T>A p.C274S COSMIC CANCER Probably Damaging 39 TCGA-50-5946-01 LUNG c.541G>C p.G181R COSMIC PASSENGER/OTHER Probably Damaging 40 TCGA-50-5946-02 LUNG c.541G>C p.G181R COSMIC PASSENGER/OTHER Probably Damaging 41 TCGA-55-7570-01 LUNG c.289G>T p.G97W COSMIC PASSENGER/OTHER Probably Damaging 42 TCGA-56-5898-01 LUNG c.8T>G p.I3R COSMIC PASSENGER/OTHER Benign 43 TCGA-60-2709-01 LUNG c.879C>G p.D293E COSMIC PASSENGER/OTHER Benign 44 TCGA-70-6722-01 LUNG c.38C>A p.T13N COSMIC PASSENGER/OTHER Benign 45 TCGA-70-6722-01 LUNG c.868G>C p.G290R COSMIC PASSENGER/OTHER Possibly Damaging 46 TCGA-70-6722-01 LUNG c.895C>G p.Q299E COSMIC PASSENGER/OTHER Benign 47 TCGA-80-5611-01 LUNG c.1216G>A p.A406T COSMIC PASSENGER/OTHER Probably Damaging 48 TCGA-86-8074-01 LUNG c.429G>A p.E143E COSMIC NP NP 49 TCGA-91-6836-01 LUNG c.1086C>T p.S362S COSMIC NP NP 50 TCGA-A5-A0GP-01 ENDOMETRIUM c.24C>T p.N8N COSMIC NP NP 51 TCGA-A6-4105-01 LARGE INTESTINE c.486C>G p.S162R COSMIC PASSENGER/OTHER Benign 52 TCGA-A6-6781-01 LARGE INTESTINE c.1424C>T p.A475V COSMIC PASSENGER/OTHER Possibly Damaging 53 TCGA-A8-A09R-01 BREAST c.729_731delAGA p.E244delE COSMIC NP NP 54 TCGA-AA-3492-01 LARGE INTESTINE c.321G>A p.A107A COSMIC NP NP 55 TCGA-AA-3510-01 LARGE INTESTINE c.1344A>G p.L448L COSMIC NP NP 56 TCGA-AA-3525-01 LARGE INTESTINE c.1010A>T p.E337V COSMIC PASSENGER/OTHER Benign 57 TCGA-AA-3663-01 LARGE INTESTINE c.37A>G p.T13A COSMIC PASSENGER/OTHER Benign 58 TCGA-AA-3845-01 LARGE INTESTINE c.1032T>C p.A344A COSMIC NP NP 59 TCGA-AA-A010-01 LARGE INTESTINE c.1098C>A p.A366A COSMIC NP NP 60 TCGA-AA-A01P-01 LARGE INTESTINE c.109C>T p.R37W COSMIC PASSENGER/OTHER Probably Damaging 61 TCGA-AG-A002-01 LARGE INTESTINE c.435G>T p.K145N COSMIC PASSENGER/OTHER Probably Damaging 62 TCGA-AG-A002-01 LARGE INTESTINE c.522C>T p.F174F COSMIC NP NP 63 TCGA-AO-A12F-01 BREAST c.337C>A p.R113R COSMIC NP NP 64 TCGA-AP-A051-01 ENDOMETRIUM c.227G>A p.R76H COSMIC CANCER Probably Damaging 65 TCGA-AP-A054-01 ENDOMETRIUM c.958C>T p.R320C COSMIC PASSENGER/OTHER Probably Damaging 66 TCGA-AP-A059-01 ENDOMETRIUM c.1055G>A p.R352Q COSMIC PASSENGER/OTHER Benign 67 TCGA-AP-A0LM-01 ENDOMETRIUM c.358G>A p.G120R COSMIC PASSENGER/OTHER Probably Damaging 68 TCGA-AR-A0TR-01 BREAST c.438C>T p.D146D COSMIC NP NP 69 TCGA-AY-6197-01 LARGE INTESTINE c.186C>T p.L62L COSMIC NP NP 70 TCGA-AZ-6600-01 LARGE INTESTINE c.185T>C p.L62P COSMIC PASSENGER/OTHER Possibly Damaging 71 TCGA-B5-A11E-01 ENDOMETRIUM c.223G>A p.D75N COSMIC CANCER Benign 72 TCGA-BH-A0BC-01 BREAST c.552C>T p.L184L COSMIC NP NP 73 TCGA-BH-A1EY-01 BREAST c.1074G>A p.S358S COSMIC NP NP 74 TCGA-BT-A20O-01 URINARY TRACT c.341T>G p.V114G COSMIC PASSENGER/OTHER Probably Damaging 75 TCGA-C8-A12K-01 BREAST c.1441C>G p.P481A COSMIC PASSENGER/OTHER Benign 76 TCGA-CA-6717-01 LARGE INTESTINE c.99C>T p.I33I COSMIC NP NP 77 TCGA-CK-6746-01 LARGE INTESTINE c.840_841insA p.L283fs*4 COSMIC NP NP 78 TCGA-CU-A0YO-01 URINARY TRACT c.1322G>A p.R441Q COSMIC PASSENGER/OTHER Probably Damaging 79 TCGA-D1-A103-01 ENDOMETRIUM c.513G>A p.S171S COSMIC NP NP 80 TCGA-D5-6928-01 LARGE INTESTINE c.227G>A p.R76H COSMIC CANCER Probably Damaging 81 TCGA-D5-6928-01 LARGE INTESTINE c.719G>A p.G240D COSMIC PASSENGER/OTHER Benign 82 TCGA-EI-6507-01 LARGE INTESTINE c.275C>G p.A92G COSMIC PASSENGER/OTHER Probably Damaging 83 TCGA-G4-6588-01 LARGE INTESTINE c.1184C>T p.A395V COSMIC PASSENGER/OTHER Probably Damaging 84 TCGA-GV-A3QI-01 URINARY TRACT c.1098C>A p.A366A COSMIC NP NP 85 YUCHIME SKIN c.829G>A p.E277K COSMIC PASSENGER/OTHER Benign 86 YUGANK SKIN c.829G>A p.E277K COSMIC PASSENGER/OTHER Benign 87 YUHEF SKIN c.1245G>A p.M415I COSMIC PASSENGER/OTHER Possibly Damaging 88 YUKLAB SKIN c.1022C>T p.P341L COSMIC PASSENGER/OTHER Benign 89 YUPROST SKIN c.1240G>A p.G414R COSMIC PASSENGER/OTHER Probably Damaging 90 YURUS SKIN c.910G>A p.E304K COSMIC PASSENGER/OTHER Benign 91 YUWAND SKIN c.1294C>T p.P432S COSMIC PASSENGER/OTHER Possibly 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 (+)
Users must enabled the Java in their browser to see structure.
Users can also download Java from here.Modelled Structure Structures available in PDB Structure is not available in PDB -
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. Mutants are not present in CCLE!!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 (+)
