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: HDAC10 |
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Mutation Data (+)
# Cell Line/Tumor sample Tissue of Origin cDNA change Protein change Source FATHMM Prediction PolyPhen2 Prediction 1 587284 LARGE INTESTINE c.274G>A p.A92T COSMIC CANCER Benign 2 BN01T LIVER c.1033A>C p.S345R COSMIC CANCER Benign 3 H358 LUNG c.782C>T p.S261L COSMIC PASSENGER/OTHER Probably Damaging 4 HCC122T LIVER c.1365G>T p.E455D COSMIC PASSENGER/OTHER Benign 5 KM12 LARGE INTESTINE c.1595delG p.G533fs*18 COSMIC NP NP 6 KM12 LARGE INTESTINE c.833C>T p.T278M COSMIC CANCER Probably Damaging 7 LAU63 SKIN c.750C>T p.A250A COSMIC NP NP 8 LC_C32 LUNG c.558C>G p.D186E COSMIC CANCER Possibly Damaging 9 LC_C5 LUNG c.5G>A p.G2E COSMIC CANCER Probably Damaging 10 LUAD-NYU284 LUNG c.1009C>G p.Q337E COSMIC CANCER Benign 11 LUAD-YINHD LUNG c.1231C>G p.R411G COSMIC PASSENGER/OTHER Benign 12 NB-0462 AUTONOMIC GANGLIA c.1414delG p.D472fs*4 COSMIC NP NP 13 PR-01-2382 PROSTATE c.337C>T p.L113L COSMIC NP NP 14 TCGA-23-1809-01 OVARY c.1657G>A p.G553S COSMIC PASSENGER/OTHER Possibly Damaging 15 TCGA-39-5031-01 LUNG c.1626C>G p.F542L COSMIC PASSENGER/OTHER Benign 16 TCGA-A6-5665-01 LARGE INTESTINE c.1464A>G p.A488A COSMIC NP NP 17 TCGA-AR-A0TU-01 BREAST c.336G>A p.Q112Q COSMIC NP NP 18 TCGA-B5-A11E-01 ENDOMETRIUM c.1525G>A p.V509M COSMIC PASSENGER/OTHER Probably Damaging 19 TCGA-BP-5202-01 KIDNEY c.1460C>T p.A487V COSMIC PASSENGER/OTHER Benign 20 TCGA-CJ-5686-01 KIDNEY c.1075C>T p.Q359* COSMIC NP NP 21 TCGA-D1-A163-01 ENDOMETRIUM c.1131G>A p.R377R COSMIC NP NP 22 TCGA-D1-A176-01 ENDOMETRIUM c.818G>A p.G273E COSMIC CANCER Probably Damaging 23 TCGA-FD-A3B6-01 URINARY TRACT c.1634C>G p.S545C COSMIC PASSENGER/OTHER Benign 24 TCGA-FD-A3B7-01 URINARY TRACT c.546C>G p.L182L COSMIC NP NP 25 TCGA-GV-A3QH-01 URINARY TRACT c.1301C>T p.A434V COSMIC PASSENGER/OTHER Benign
*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 (+)
Proteomics DB COSMIC Gene Atlas STRING PIR HDAC10 HDAC10 HDAC10 ENSP00000216271 Q969S8 QuickGO HGNC Ensembl Genome Browser TreeFam UniProt Q969S8 HDAC10 ENSP00000216271 HDAC10 Q969S8 Expression Atlas Protein Atlas OMIM IntAct PharmGKB HDAC10 ENSP00000216271 608544 Q969S8 PA38297
