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: SMYD2 |
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Mutation Data (+)
# Cell Line/Tumor sample Tissue of Origin cDNA change Protein change Source FATHMM Prediction PolyPhen2 Prediction 1 587376 LARGE INTESTINE c.380A>C p.K127T COSMIC PASSENGER/OTHER Benign 2 HCC4T LIVER c.1143G>A p.V381V COSMIC NP NP 3 HCC6T LIVER c.300G>T p.W100C COSMIC PASSENGER/OTHER Probably Damaging 4 HN_63080 UPPER AERODIGESTIVE TRACT c.430G>A p.E144K COSMIC PASSENGER/OTHER Probably Damaging 5 HX13T LIVER c.1143G>A p.V381V COSMIC NP NP 6 LC_S11 LUNG c.503A>T p.D168V COSMIC PASSENGER/OTHER Possibly Damaging 7 LC_S11 LUNG c.506A>C p.N169T COSMIC PASSENGER/OTHER Benign 8 LUAD-B00416 LUNG c.850G>T p.D284Y COSMIC PASSENGER/OTHER Possibly Damaging 9 LUAD-FH5PJ LUNG c.297C>A p.N99K COSMIC PASSENGER/OTHER Benign 10 LUAD-LIP77 LUNG c.997G>A p.E333K COSMIC PASSENGER/OTHER Possibly Damaging 11 LUAD-S01409 LUNG c.796G>A p.E266K COSMIC PASSENGER/OTHER Probably Damaging 12 TCGA-22-0944-01 LUNG c.144G>T p.R48R COSMIC NP NP 13 TCGA-24-1105-01 OVARY c.408A>G p.S136S COSMIC NP NP 14 TCGA-39-5030-01 LUNG c.197G>T p.G66V COSMIC CANCER Probably Damaging 15 TCGA-44-6778-01 LUNG c.179A>G p.E60G COSMIC PASSENGER/OTHER Possibly Damaging 16 TCGA-50-5935-01 LUNG c.1249G>A p.G417S COSMIC PASSENGER/OTHER Probably Damaging 17 TCGA-56-1622-01 LUNG c.656G>T p.G219V COSMIC PASSENGER/OTHER Probably Damaging 18 TCGA-A2-A0SX-01 BREAST c.381A>G p.K127K COSMIC NP NP 19 TCGA-A5-A0GA-01 ENDOMETRIUM c.849C>T p.S283S COSMIC NP NP 20 TCGA-AA-3555-01 LARGE INTESTINE c.749G>T p.R250I COSMIC PASSENGER/OTHER Probably Damaging 21 TCGA-AA-3815-01 LARGE INTESTINE c.1215G>T p.L405L COSMIC NP NP 22 TCGA-AP-A051-01 ENDOMETRIUM c.493G>A p.G165R COSMIC PASSENGER/OTHER Benign 23 TCGA-AP-A056-01 ENDOMETRIUM c.378A>T p.E126D COSMIC PASSENGER/OTHER Probably Damaging 24 TCGA-AX-A0J0-01 ENDOMETRIUM c.516C>T p.L172L COSMIC NP NP 25 TCGA-AX-A0J1-01 ENDOMETRIUM c.895C>T p.R299C COSMIC PASSENGER/OTHER Benign 26 TCGA-B0-5119-01 KIDNEY c.1249G>A p.G417S COSMIC PASSENGER/OTHER Probably Damaging 27 TCGA-B5-A0JV-01 ENDOMETRIUM c.957G>A p.E319E COSMIC NP NP 28 TCGA-BH-A0DQ-01 BREAST c.870C>T p.A290A COSMIC NP NP 29 TCGA-BS-A0UF-01 ENDOMETRIUM c.612G>T p.L204F COSMIC PASSENGER/OTHER Probably Damaging 30 TCGA-CA-6718-01 LARGE INTESTINE c.591G>A p.A197A COSMIC NP NP 31 TCGA-CM-5861-01 LARGE INTESTINE c.65delG p.A23fs*84 COSMIC NP NP 32 TCGA-D1-A101-01 ENDOMETRIUM c.203G>A p.C68Y COSMIC CANCER Probably Damaging 33 TCGA-D1-A15X-01 ENDOMETRIUM c.963C>T p.C321C COSMIC NP NP 34 TCGA-D1-A15Z-01 ENDOMETRIUM c.699_700insGAG p.E235_V236insE COSMIC NP NP 35 TCGA-D5-6928-01 LARGE INTESTINE c.306C>A p.P102P COSMIC NP NP 36 TCGA-D8-A1JJ-01 BREAST c.559G>A p.E187K COSMIC PASSENGER/OTHER Probably Damaging 37 TCGA-DM-A1DB-01 LARGE INTESTINE c.916C>T p.R306W COSMIC PASSENGER/OTHER Benign 38 TCGA-FD-A3B4-01 URINARY TRACT c.354C>A p.I118I COSMIC NP NP 39 TCGA-G2-A2EO-01 URINARY TRACT c.955G>A p.E319K 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 (+)
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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. 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 SMYD2 SMYD2 SMYD2 ENSP00000355924 Q9NRG4 QuickGO HGNC Ensembl Genome Browser TreeFam UniProt Q9NRG4 SMYD2 ENSP00000355924 SMYD2 Q9NRG4 Expression Atlas Protein Atlas OMIM IntAct PharmGKB SMYD2 ENSP00000355924 610663 Q9NRG4 PA134930268
