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: YY1 |
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Mutation Data (+)
# Cell Line/Tumor sample Tissue of Origin cDNA change Protein change Source FATHMM Prediction PolyPhen2 Prediction 1 587376 LARGE INTESTINE c.1124G>A p.R375Q COSMIC PASSENGER/OTHER Probably Damaging 2 CHC1061T LIVER c.1225A>G p.K409E COSMIC PASSENGER/OTHER Probably Damaging 3 HCC97T LIVER c.206_207insCCA p.H80_P81insH COSMIC NP NP 4 LUAD-CHTN-MAD04-00674 LUNG c.528C>T p.G176G COSMIC NP NP 5 P09-1580 PROSTATE c.127_129delGAG p.E43delE COSMIC NP NP 6 PD6746a NS c.1069T>C p.F357L COSMIC PASSENGER/OTHER Probably Damaging 7 TCGA-50-5941-01 LUNG c.1154G>T p.C385F COSMIC CANCER Probably Damaging 8 TCGA-AB-2916-03 HAEMATOPOIETIC AND LYMPHOID TISSUE c.759A>G p.E253E COSMIC NP NP 9 TCGA-AG-A002-01 LARGE INTESTINE c.941G>T p.R314I COSMIC PASSENGER/OTHER Probably Damaging 10 TCGA-BG-A0M4-01 ENDOMETRIUM c.802A>G p.I268V COSMIC PASSENGER/OTHER Benign 11 TCGA-BG-A0MO-01 ENDOMETRIUM c.207_209delCCA p.H80delH COSMIC NP NP 12 TCGA-BG-A0MU-01 ENDOMETRIUM c.283_284delAC p.T95fs*52 COSMIC NP NP 13 TCGA-D1-A16N-01 ENDOMETRIUM c.207_209delCCA p.H80delH COSMIC NP NP 14 TCGA-DS-A0VN-01 CERVIX c.381C>T p.F127F COSMIC NP NP 15 TCGA-EJ-5499-01 PROSTATE c.759A>G p.E253E COSMIC NP NP 16 TCGA-EJ-5503-01 PROSTATE c.759A>G p.E253E COSMIC NP NP 17 WA26 PROSTATE c.367G>A p.A123T COSMIC PASSENGER/OTHER Benign 18 cSCCP7 SKIN c.1082G>A p.G361E COSMIC PASSENGER/OTHER 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 (+)
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Structure Domains (+)
1. PFAM Domains:Domain ID Domain Name Start Site End Site E-value PF13894 zf-C2H2_4 297 320 0.015 PB011295 Pfam-B_11295 315 407 3e-08 PB000057 Pfam-B_57 330 394 9.1e-07 PF13465 zf-H2C2_2 340 365 5.9e-07 PF13465 zf-H2C2_2 369 395 8.4e-08 2. Superfamily Domains:Domain ID Start Site End Site E-value 0050784 333 388 7.35e-20 0044259 295 322 2.83e-09 0045966 377 411 6.37e-09 -
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 YY1 YY1 YY1 ENSP00000262238 P25490 QuickGO HGNC Ensembl Genome Browser TreeFam UniProt P25490 YY1 ENSP00000262238 YY1 P25490 Expression Atlas Protein Atlas OMIM IntAct PharmGKB YY1 ENSP00000262238 600013 P25490 PA37445
