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: HDAC11 |
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Mutation Data (+)
# Cell Line/Tumor sample Tissue of Origin cDNA change Protein change Source FATHMM Prediction PolyPhen2 Prediction 1 587228 LARGE INTESTINE c.285delC p.V98fs*14 COSMIC NP NP 2 LC_S15 LUNG c.793G>C p.G265R COSMIC PASSENGER/OTHER Probably Damaging 3 LUAD-S01315 LUNG c.729G>C p.K243N COSMIC PASSENGER/OTHER Benign 4 LUAD-S01315 LUNG c.967G>T p.G323W COSMIC PASSENGER/OTHER Probably Damaging 5 MEL-JWCI-WGS-22 SKIN c.197delC p.S67fs*45 COSMIC NP NP 6 OV207 OVARY c.503G>A p.R168H COSMIC PASSENGER/OTHER Benign 7 PD4120a BREAST c.955C>T p.L319L COSMIC NP NP 8 TCGA-05-4432-01 LUNG c.657C>G p.I219M COSMIC CANCER Probably Damaging 9 TCGA-24-0980-01 OVARY c.716A>T p.E239V COSMIC PASSENGER/OTHER Benign 10 TCGA-59-2348-01 OVARY c.288C>T p.P96P COSMIC NP NP 11 TCGA-97-7937-01 LUNG c.955C>G p.L319V COSMIC CANCER Probably Damaging 12 TCGA-99-7458-01 LUNG c.931A>G p.I311V COSMIC PASSENGER/OTHER Benign 13 TCGA-A6-5661-01 LARGE INTESTINE c.285delC p.V98fs*14 COSMIC NP NP 14 TCGA-A6-5666-01 LARGE INTESTINE c.288C>T p.P96P COSMIC NP NP 15 TCGA-A8-A08Z-01 BREAST c.753C>T p.P251P COSMIC NP NP 16 TCGA-AA-3516-01 LARGE INTESTINE c.970C>A p.L324I COSMIC PASSENGER/OTHER Probably Damaging 17 TCGA-AF-6672-01 LARGE INTESTINE c.468G>A p.A156A COSMIC NP NP 18 TCGA-AP-A0LE-01 ENDOMETRIUM c.781G>A p.D261N COSMIC CANCER Probably Damaging 19 TCGA-AX-A0J1-01 ENDOMETRIUM c.233G>A p.R78H COSMIC CANCER Probably Damaging 20 TCGA-AY-6197-01 LARGE INTESTINE c.68G>A p.R23H COSMIC CANCER Benign 21 TCGA-AZ-6601-01 LARGE INTESTINE c.716A>G p.E239G COSMIC PASSENGER/OTHER Benign 22 TCGA-B5-A0JY-01 ENDOMETRIUM c.44G>A p.R15H COSMIC CANCER Possibly Damaging 23 TCGA-BH-A0AU-01 BREAST c.672G>T p.E224D COSMIC PASSENGER/OTHER Possibly Damaging 24 TCGA-BS-A0UF-01 ENDOMETRIUM c.538C>A p.L180I COSMIC PASSENGER/OTHER Probably Damaging 25 TCGA-CF-A3MG-01 URINARY TRACT c.617G>A p.R206H COSMIC CANCER Possibly Damaging 26 TCGA-CH-5766-01 PROSTATE c.447C>T p.G149G COSMIC NP NP 27 TCGA-CK-6746-01 LARGE INTESTINE c.285delC p.V98fs*14 COSMIC NP NP 28 TCGA-CM-5860-01 LARGE INTESTINE c.291C>A p.P97P COSMIC NP NP 29 TCGA-CM-5861-01 LARGE INTESTINE c.1019C>T p.P340L COSMIC PASSENGER/OTHER Benign 30 TCGA-CM-5862-01 LARGE INTESTINE c.716A>G p.E239G COSMIC PASSENGER/OTHER Benign 31 TCGA-D1-A103-01 ENDOMETRIUM c.638G>A p.R213H COSMIC CANCER Benign 32 TCGA-D1-A167-01 ENDOMETRIUM c.66G>A p.P22P COSMIC NP NP 33 TCGA-D1-A174-01 ENDOMETRIUM c.827C>T p.A276V COSMIC PASSENGER/OTHER Benign 34 TCGA-D8-A1Y1-01 BREAST c.900C>A p.T300T COSMIC NP NP 35 TCGA-DK-A3IM-01 URINARY TRACT c.139A>C p.N47H COSMIC CANCER Benign 36 TCGA-G4-6628-01 LARGE INTESTINE c.560G>T p.G187V COSMIC CANCER Probably Damaging 37 WA14 PROSTATE c.67C>T p.R23C COSMIC CANCER Probably Damaging 38 WA19 PROSTATE c.448G>A p.G150R 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 (+)
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 HDAC11 HDAC11 HDAC11 ENSP00000295757 Q96DB2 QuickGO HGNC Ensembl Genome Browser TreeFam UniProt Q96DB2 HDAC11 ENSP00000295757 HDAC11 Q96DB2 Expression Atlas Protein Atlas OMIM IntAct PharmGKB HDAC11 ENSP00000295757 607226 Q96DB2 PA38793
