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: TFPT |
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Mutation Data (+)
# Cell Line/Tumor sample Tissue of Origin cDNA change Protein change Source FATHMM Prediction PolyPhen2 Prediction 1 BCP1 HAEMATOPOIETIC AND LYMPHOID TISSUE c.760T>G p.*254G CCLE NP NP 2 BICR6 UPPER AERODIGESTIVE TRACT c.658G>A p.D220N CCLE NP Possibly Damaging 3 GP2D LARGE INTESTINE c.362T>C p.M121T CCLE NP Possibly Damaging 4 HCT116 LARGE INTESTINE c.144_145delGT p.V48fs CCLE NP NP 5 HLF LIVER c.331C>T p.R111W CCLE NP Probably Damaging 6 HPBALL HAEMATOPOIETIC AND LYMPHOID TISSUE c.83T>C p.L28S CCLE NP Probably Damaging 7 KCL22 HAEMATOPOIETIC AND LYMPHOID TISSUE c.152G>T p.G51V CCLE NP Possibly Damaging 8 KYSE270 OESOPHAGUS c.733C>T p.P245S CCLE NP Probably Damaging 9 MELJUSO SKIN c.509G>A p.R170K CCLE NP Benign 10 NCIH1568 LUNG c.3G>A p.M1I CCLE NP Possibly Damaging 11 OVISE OVARY c.578G>A p.R193Q CCLE NP Benign 12 PC3 PROSTATE c.189G>C p.E63D CCLE NP Probably Damaging 13 SNU1040 LARGE INTESTINE c.236G>A p.R79H CCLE NP Benign 14 SNU1040 LARGE INTESTINE c.263G>A p.R88H CCLE NP Benign 15 SNU1040 LARGE INTESTINE c.568C>T p.R190W CCLE NP Benign 16 SNU175 LARGE INTESTINE c.262C>T p.R88C CCLE NP Probably Damaging 17 SNU407 LARGE INTESTINE c.223C>T p.R75W CCLE NP Benign 18 SNU878 LIVER c.731A>G p.Y244C CCLE NP Probably Damaging 19 SNU8 OVARY c.599G>A p.R200H CCLE NP Benign 20 TF1 HAEMATOPOIETIC AND LYMPHOID TISSUE c.382G>A p.G128R CCLE NP Probably Damaging 21 587226 LARGE INTESTINE c.568C>T p.R190W COSMIC NP Benign 22 HCT-116 LARGE INTESTINE c.141_142delTG p.S49fs*13 COSMIC NP NP 23 LC_C36 LUNG c.511_513delAGG p.R171delR COSMIC NP NP 24 LUAD-S01482 LUNG c.341A>G p.Q114R COSMIC NP Benign 25 TCGA-29-2434-01 OVARY c.209G>A p.R70Q COSMIC NP Benign 26 TCGA-34-5231-01 LUNG c.288C>A p.N96K COSMIC NP Probably Damaging 27 TCGA-44-2656-01 LUNG c.13C>G p.Q5E COSMIC NP Possibly Damaging 28 TCGA-86-7701-01 LUNG c.605C>T p.A202V COSMIC NP Benign 29 TCGA-AA-3877-01 LARGE INTESTINE c.606A>G p.A202A COSMIC NP NP 30 TCGA-AA-A01R-01 LARGE INTESTINE c.468G>A p.A156A COSMIC NP NP 31 TCGA-AH-6644-01 LARGE INTESTINE c.53delT p.F18fs*60 COSMIC NP NP 32 TCGA-AP-A059-01 ENDOMETRIUM c.423G>T p.E141D COSMIC NP Probably Damaging 33 TCGA-AX-A0J1-01 ENDOMETRIUM c.444G>A p.T148T COSMIC NP NP 34 TCGA-AZ-6599-01 LARGE INTESTINE c.504G>A p.P168P COSMIC NP NP 35 TCGA-BH-A0W7-01 BREAST c.755C>G p.S252C COSMIC NP Benign 36 TCGA-D1-A103-01 ENDOMETRIUM c.12G>A p.E4E COSMIC NP NP 37 TCGA-D1-A17Q-01 ENDOMETRIUM c.54C>T p.F18F COSMIC NP NP
*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.Gene essentiality data is not present in COLT database!! -
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. Variants are not present in 1000 Genomes!!2. Sequence alignment with CCLE mutants:
Click on button to get Sequence alignment with Coverage, Consensus and Quality 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 TFPT TFPT TFPT ENSP00000375639 P0C1Z6 QuickGO HGNC Ensembl Genome Browser TreeFam UniProt P0C1Z6 TFPT ENSP00000375639 TFPT P0C1Z6 Expression Atlas Protein Atlas OMIM IntAct PharmGKB TFPT ENSP00000375639 609519 P0C1Z6 PA37802
