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: HDAC7 |
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Mutation Data (+)
# Cell Line/Tumor sample Tissue of Origin cDNA change Protein change Source FATHMM Prediction PolyPhen2 Prediction 1 585208 LUNG c.1129C>T p.R377C COSMIC PASSENGER/OTHER Benign 2 587228 LARGE INTESTINE c.269C>T p.A90V COSMIC PASSENGER/OTHER Probably Damaging 3 587284 LARGE INTESTINE c.1024G>A p.E342K COSMIC PASSENGER/OTHER Possibly Damaging 4 587376 LARGE INTESTINE c.188A>G p.E63G COSMIC PASSENGER/OTHER Benign 5 587376 LARGE INTESTINE c.2435G>T p.G812V COSMIC PASSENGER/OTHER Probably Damaging 6 97-14402 HAEMATOPOIETIC AND LYMPHOID TISSUE c.2356G>A p.A786T COSMIC PASSENGER/OTHER Probably Damaging 7 DLBCL-PatientL HAEMATOPOIETIC AND LYMPHOID TISSUE c.464C>T p.S155F COSMIC PASSENGER/OTHER Probably Damaging 8 HCC1937 BREAST c.127G>A p.V43M COSMIC PASSENGER/OTHER Benign 9 HCC53T LIVER c.1187A>G p.E396G COSMIC PASSENGER/OTHER Probably Damaging 10 HN_62756 UPPER AERODIGESTIVE TRACT c.1152C>T p.H384H COSMIC NP NP 11 LC_C26 LUNG c.1201C>T p.R401W COSMIC PASSENGER/OTHER Probably Damaging 12 LUAD-74TBW LUNG c.1074A>C p.S358S COSMIC NP NP 13 LUAD-B00416 LUNG c.1660C>T p.R554W COSMIC PASSENGER/OTHER Probably Damaging 14 LUAD-B01811 LUNG c.1064G>T p.R355L COSMIC CANCER Probably Damaging 15 LUAD-E00897 LUNG c.1639C>T p.R547C COSMIC CANCER Probably Damaging 16 LUAD-F00057 LUNG c.1005C>G p.A335A COSMIC NP NP 17 LUAD-NYU259 LUNG c.1937C>G p.T646S COSMIC PASSENGER/OTHER Possibly Damaging 18 LUAD-RT-S01777 LUNG c.1028G>T p.R343L COSMIC CANCER Benign 19 LUAD-S01478 LUNG c.1023C>T p.T341T COSMIC NP NP 20 NCI-H2087 LUNG c.2550C>G p.D850E COSMIC PASSENGER/OTHER Benign 21 P06-2325 PROSTATE c.389T>G p.L130R COSMIC PASSENGER/OTHER Possibly Damaging 22 PAMDRM HAEMATOPOIETIC AND LYMPHOID TISSUE c.497_498insA p.K167fs*35 COSMIC NP NP 23 PD7299a BONE c.2105T>G p.L702R COSMIC CANCER Probably Damaging 24 PGBM18PT CENTRAL NERVOUS SYSTEM c.2698C>T p.R900C COSMIC PASSENGER/OTHER Possibly Damaging 25 RK021_C01 LIVER c.494C>A p.P165H COSMIC PASSENGER/OTHER Probably Damaging 26 T75 ENDOMETRIUM c.1024G>A p.E342K COSMIC PASSENGER/OTHER Possibly Damaging 27 TCGA-05-4420-01 LUNG c.1260G>C p.V420V COSMIC NP NP 28 TCGA-05-5715-01 LUNG c.2554T>C p.S852P COSMIC CANCER Probably Damaging 29 TCGA-36-1577-01 OVARY c.2422G>A p.A808T COSMIC CANCER Benign 30 TCGA-37-5819-01 LUNG c.1626G>C p.P542P COSMIC NP NP 31 TCGA-44-3918-01 LUNG c.1232C>T p.T411I COSMIC PASSENGER/OTHER Possibly Damaging 32 TCGA-50-5946-02 LUNG c.1672C>T p.R558W COSMIC CANCER Probably Damaging 33 TCGA-75-5126-01 LUNG c.536A>G p.K179R COSMIC PASSENGER/OTHER Probably Damaging 34 TCGA-A6-2672-01 LARGE INTESTINE c.425G>A p.S142N COSMIC PASSENGER/OTHER Benign 35 TCGA-A6-4105-01 LARGE INTESTINE c.2549A>G p.D850G COSMIC PASSENGER/OTHER Benign 36 TCGA-A6-6648-01 LARGE INTESTINE c.652G>A p.G218S COSMIC PASSENGER/OTHER Possibly Damaging 37 TCGA-AA-3815-01 LARGE INTESTINE c.2153_2155delTCT p.F718delF COSMIC NP NP 38 TCGA-AA-3864-01 LARGE INTESTINE c.2472G>A p.T824T COSMIC NP NP 39 TCGA-AA-A01P-01 LARGE INTESTINE c.2137G>A p.G713S COSMIC CANCER Probably Damaging 40 TCGA-AA-A01Q-01 LARGE INTESTINE c.616G>A p.A206T COSMIC PASSENGER/OTHER Possibly Damaging 41 TCGA-AA-A01R-01 LARGE INTESTINE c.71G>A p.R24H COSMIC PASSENGER/OTHER Benign 42 TCGA-AA-A022-01 LARGE INTESTINE c.198G>A p.L66L COSMIC NP NP 43 TCGA-AD-6889-01 LARGE INTESTINE c.2343C>T p.V781V COSMIC NP NP 44 TCGA-AD-6889-01 LARGE INTESTINE c.2476C>A p.Q826K COSMIC CANCER Benign 45 TCGA-AD-6964-01 LARGE INTESTINE c.1700T>A p.L567H COSMIC CANCER Possibly Damaging 46 TCGA-AP-A059-01 ENDOMETRIUM c.1830G>T p.Q610H COSMIC CANCER Benign 47 TCGA-AX-A0J1-01 ENDOMETRIUM c.1945G>A p.A649T COSMIC PASSENGER/OTHER Possibly Damaging 48 TCGA-B5-A11E-01 ENDOMETRIUM c.2704G>A p.A902T COSMIC PASSENGER/OTHER Benign 49 TCGA-BS-A0UJ-01 ENDOMETRIUM c.2683T>C p.W895R COSMIC CANCER Probably Damaging 50 TCGA-BS-A0UV-01 ENDOMETRIUM c.1963C>T p.R655C COSMIC CANCER Probably Damaging 51 TCGA-CZ-5461-01 KIDNEY c.1856G>C p.G619A COSMIC CANCER Probably Damaging 52 TCGA-D1-A103-01 ENDOMETRIUM c.385A>G p.M129V COSMIC PASSENGER/OTHER Benign 53 TCGA-D5-6535-01 LARGE INTESTINE c.2550C>T p.D850D COSMIC NP NP 54 TCGA-G5-6235-01 LARGE INTESTINE c.1027C>T p.R343W COSMIC CANCER Probably Damaging 55 TCGA-GV-A3QI-01 URINARY TRACT c.315C>G p.V105V COSMIC NP NP 56 YUZINO SKIN c.383C>T p.S128F COSMIC PASSENGER/OTHER Benign 57 cSCCP6 SKIN c.2612G>A p.G871D COSMIC CANCER 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. Variants are not present in 1000 Genomes!!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 HDAC7 HDAC7 HDAC7 ENSP00000080059 Q8WUI4 QuickGO HGNC Ensembl Genome Browser TreeFam UniProt Q8WUI4 HDAC7 ENSP00000080059 HDAC7 Q8WUI4 Expression Atlas Protein Atlas OMIM IntAct PharmGKB HDAC7 ENSP00000080059 606542 Q8WUI4 PA162390579
