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: RBBP7 |
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Mutation Data (+)
# Cell Line/Tumor sample Tissue of Origin cDNA change Protein change Source FATHMM Prediction PolyPhen2 Prediction 1 587256 LARGE INTESTINE c.908G>A p.R303H COSMIC PASSENGER/OTHER Probably Damaging 2 587376 LARGE INTESTINE c.820G>A p.E274K COSMIC PASSENGER/OTHER Possibly Damaging 3 8015858 PANCREAS c.908G>A p.R303H COSMIC PASSENGER/OTHER Probably Damaging 4 90482 HAEMATOPOIETIC AND LYMPHOID TISSUE c.959delT p.F320fs*22 COSMIC NP NP 5 BB30-HNC UPPER AERODIGESTIVE TRACT c.827A>G p.N276S COSMIC PASSENGER/OTHER Probably Damaging 6 HCC6T LIVER c.842A>G p.N281S COSMIC PASSENGER/OTHER Benign 7 HCC71T LIVER c.142T>C p.W48R COSMIC PASSENGER/OTHER Probably Damaging 8 ICGC_0052 PANCREAS c.908G>A p.R303H COSMIC PASSENGER/OTHER Probably Damaging 9 LAU50_1 SKIN c.592G>A p.D198N COSMIC CANCER Possibly Damaging 10 LAU50_2 SKIN c.592G>A p.D198N COSMIC CANCER Possibly Damaging 11 LUAD-E01278 LUNG c.520G>A p.G174S COSMIC PASSENGER/OTHER Probably Damaging 12 LUAD-NYU263 LUNG c.652G>T p.A218S COSMIC PASSENGER/OTHER Benign 13 PR-00-1165 PROSTATE c.1076A>G p.E359G COSMIC PASSENGER/OTHER Benign 14 PR-00-1165 PROSTATE c.384T>C p.R128R COSMIC NP NP 15 TCGA-09-2051-01 OVARY c.889G>T p.V297L COSMIC PASSENGER/OTHER Possibly Damaging 16 TCGA-10-0931-01 OVARY c.936C>T p.F312F COSMIC NP NP 17 TCGA-33-4547-01 LUNG c.232C>T p.L78L COSMIC NP NP 18 TCGA-55-6985-01 LUNG c.1020C>A p.R340R COSMIC NP NP 19 TCGA-A5-A0GB-01 ENDOMETRIUM c.707T>C p.L236P COSMIC PASSENGER/OTHER Benign 20 TCGA-A6-2671-01 LARGE INTESTINE c.1015C>A p.R339S COSMIC PASSENGER/OTHER Possibly Damaging 21 TCGA-AA-3662-01 LARGE INTESTINE c.827A>G p.N276S COSMIC PASSENGER/OTHER Probably Damaging 22 TCGA-AA-3864-01 LARGE INTESTINE c.382C>T p.R128C COSMIC PASSENGER/OTHER Possibly Damaging 23 TCGA-AA-3941-01 LARGE INTESTINE c.1247C>T p.T416M COSMIC PASSENGER/OTHER Benign 24 TCGA-AA-A00N-01 LARGE INTESTINE c.820G>A p.E274K COSMIC PASSENGER/OTHER Possibly Damaging 25 TCGA-AA-A010-01 LARGE INTESTINE c.820G>A p.E274K COSMIC PASSENGER/OTHER Possibly Damaging 26 TCGA-AA-A010-01 LARGE INTESTINE c.937G>A p.E313K COSMIC PASSENGER/OTHER Benign 27 TCGA-AA-A01Q-01 LARGE INTESTINE c.1019G>A p.R340H COSMIC PASSENGER/OTHER Probably Damaging 28 TCGA-AD-5900-01 LARGE INTESTINE c.43G>A p.V15I COSMIC PASSENGER/OTHER Benign 29 TCGA-AG-A002-01 LARGE INTESTINE c.937G>A p.E313K COSMIC PASSENGER/OTHER Benign 30 TCGA-AO-A1KS-01 BREAST c.715G>C p.E239Q COSMIC PASSENGER/OTHER Possibly Damaging 31 TCGA-AP-A056-01 ENDOMETRIUM c.367G>A p.E123K COSMIC PASSENGER/OTHER Benign 32 TCGA-AP-A056-01 ENDOMETRIUM c.501T>G p.N167K COSMIC PASSENGER/OTHER Benign 33 TCGA-AP-A059-01 ENDOMETRIUM c.609G>A p.L203L COSMIC NP NP 34 TCGA-AP-A0LM-01 ENDOMETRIUM c.83C>T p.P28L COSMIC PASSENGER/OTHER Probably Damaging 35 TCGA-AX-A05Z-01 ENDOMETRIUM c.1024A>C p.N342H COSMIC PASSENGER/OTHER Benign 36 TCGA-AX-A0J0-01 ENDOMETRIUM c.634G>T p.E212* COSMIC NP NP 37 TCGA-AZ-4315-01 LARGE INTESTINE c.958T>G p.F320V COSMIC PASSENGER/OTHER Benign 38 TCGA-B5-A0JY-01 ENDOMETRIUM c.25G>T p.D9Y COSMIC PASSENGER/OTHER Possibly Damaging 39 TCGA-B5-A0K8-01 ENDOMETRIUM c.781A>C p.T261P COSMIC PASSENGER/OTHER Benign 40 TCGA-BG-A0M3-01 ENDOMETRIUM c.539A>G p.Y180C COSMIC PASSENGER/OTHER Probably Damaging 41 TCGA-CK-5916-01 LARGE INTESTINE c.75_77delGAA p.K25delK COSMIC NP NP 42 TCGA-CM-5344-01 LARGE INTESTINE c.934T>C p.F312L COSMIC PASSENGER/OTHER Benign 43 TCGA-CM-5861-01 LARGE INTESTINE c.1159delT p.W387fs*>39 COSMIC NP NP 44 TCGA-CM-6171-01 LARGE INTESTINE c.809C>T p.A270V COSMIC PASSENGER/OTHER Possibly Damaging 45 TCGA-D1-A0ZO-01 ENDOMETRIUM c.1132G>A p.D378N COSMIC PASSENGER/OTHER Probably Damaging 46 TCGA-D1-A16Y-01 ENDOMETRIUM c.621C>T p.N207N COSMIC NP NP 47 TCGA-D1-A17Q-01 ENDOMETRIUM c.367G>A p.E123K COSMIC PASSENGER/OTHER Benign 48 TCGA-D1-A17Q-01 ENDOMETRIUM c.941C>A p.S314Y COSMIC PASSENGER/OTHER Benign 49 TCGA-D5-5538-01 LARGE INTESTINE c.934T>C p.F312L COSMIC PASSENGER/OTHER Benign 50 TCGA-DC-5337-01 LARGE INTESTINE c.1019G>A p.R340H COSMIC PASSENGER/OTHER Probably Damaging 51 TCGA-G4-6317-01 LARGE INTESTINE c.936C>T p.F312F COSMIC NP NP 52 W040 BILIARY TRACT c.98_109del12 p.L33_T36delLVMT COSMIC NP NP 53 ccRCC-92 KIDNEY c.151G>A p.E51K 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 RBBP7 RBBP7 RBBP7 ENSP00000369424 Q16576 QuickGO HGNC Ensembl Genome Browser TreeFam UniProt Q16576 RBBP7 ENSP00000369424 RBBP7 Q16576 Expression Atlas Protein Atlas OMIM IntAct PharmGKB RBBP7 ENSP00000369424 300825 Q16576 PA34254
