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: RBBP4 |
| Expand All | Collapse All |
-
Mutation Data (+)
# Cell Line/Tumor sample Tissue of Origin cDNA change Protein change Source FATHMM Prediction PolyPhen2 Prediction 1 08-129 CENTRAL NERVOUS SYSTEM c.628G>T p.V210F COSMIC PASSENGER/OTHER Benign 2 1874576 HAEMATOPOIETIC AND LYMPHOID TISSUE c.988G>A p.E330K COSMIC PASSENGER/OTHER Possibly Damaging 3 585210 LUNG c.1156G>A p.E386K COSMIC PASSENGER/OTHER Benign 4 585267 LUNG c.1069G>A p.E357K COSMIC PASSENGER/OTHER Benign 5 587332 LARGE INTESTINE c.143A>G p.Q48R COSMIC CANCER Probably Damaging 6 BN23T LIVER c.481C>G p.P161A COSMIC CANCER Benign 7 DLBCL-PatientH HAEMATOPOIETIC AND LYMPHOID TISSUE c.596A>G p.D199G COSMIC CANCER Probably Damaging 8 ESO-0079 OESOPHAGUS c.49A>T p.I17F COSMIC CANCER Possibly Damaging 9 ESO-0125 OESOPHAGUS c.194G>A p.R65Q COSMIC CANCER Benign 10 LC_S11 LUNG c.316G>T p.G106* COSMIC NP NP 11 LC_S11 LUNG c.317G>C p.G106A COSMIC CANCER Benign 12 LUAD-S01315 LUNG c.55G>A p.E19K COSMIC CANCER Possibly Damaging 13 P03-871 PROSTATE c.736G>T p.V246F COSMIC PASSENGER/OTHER Probably Damaging 14 SA054 BREAST c.116C>G p.A39G COSMIC CANCER Benign 15 SWE-4B PROSTATE c.1186G>T p.D396Y COSMIC CANCER Probably Damaging 16 TCGA-04-1362-01 OVARY c.245C>A p.A82D COSMIC CANCER Possibly Damaging 17 TCGA-18-3409-01 LUNG c.847C>T p.P283S COSMIC PASSENGER/OTHER Probably Damaging 18 TCGA-50-5933-01 LUNG c.357C>A p.I119I COSMIC NP NP 19 TCGA-AB-2919-03 HAEMATOPOIETIC AND LYMPHOID TISSUE c.988G>A p.E330K COSMIC PASSENGER/OTHER Possibly Damaging 20 TCGA-AB-2926-03 HAEMATOPOIETIC AND LYMPHOID TISSUE c.988G>A p.E330K COSMIC PASSENGER/OTHER Possibly Damaging 21 TCGA-AF-2693-01 LARGE INTESTINE c.245C>A p.A82D COSMIC CANCER Possibly Damaging 22 TCGA-AP-A059-01 ENDOMETRIUM c.1175C>T p.S392F COSMIC PASSENGER/OTHER Probably Damaging 23 TCGA-AP-A0LM-01 ENDOMETRIUM c.740C>A p.A247D COSMIC PASSENGER/OTHER Benign 24 TCGA-AR-A24Z-01 BREAST c.51C>T p.I17I COSMIC NP NP 25 TCGA-AZ-4315-01 LARGE INTESTINE c.1108C>A p.H370N COSMIC PASSENGER/OTHER Probably Damaging 26 TCGA-B5-A0JY-01 ENDOMETRIUM c.740C>T p.A247V COSMIC PASSENGER/OTHER Possibly Damaging 27 TCGA-BG-A0VZ-01 ENDOMETRIUM c.33A>G p.A11A COSMIC NP NP 28 TCGA-CZ-5470-01 KIDNEY c.1128G>T p.K376N COSMIC PASSENGER/OTHER Possibly Damaging 29 TCGA-D8-A27N-01 BREAST c.1194C>T p.I398I COSMIC NP NP 30 TCGA-DK-A1A3-01 URINARY TRACT c.1140C>T p.F380F COSMIC NP NP 31 TCGA-G4-6309-01 LARGE INTESTINE c.284C>T p.A95V COSMIC CANCER Benign 32 TCGA-G4-6586-01 LARGE INTESTINE c.1056G>T p.E352D COSMIC PASSENGER/OTHER Benign 33 WA43-27 PROSTATE c.118C>G p.L40V COSMIC CANCER Possibly Damaging 34 WA43-44 PROSTATE c.118C>G p.L40V COSMIC CANCER Possibly Damaging 35 WA43-71 PROSTATE c.118C>G p.L40V COSMIC CANCER Possibly Damaging 36 YUKLAB SKIN c.935C>T p.S312F COSMIC PASSENGER/OTHER Benign
*NP: Not Predicted -
Copy number variation and expression profile (+)
-
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 (+)
-
Structure Domains (+)
-
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 (+)
-
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 RBBP4 RBBP4 RBBP4 ENSP00000362584 Q09028 QuickGO HGNC Ensembl Genome Browser TreeFam UniProt Q09028 RBBP4 ENSP00000362584 RBBP4 Q09028 Expression Atlas Protein Atlas OMIM IntAct PharmGKB RBBP4 ENSP00000362584 602923 Q09028 PA34251
