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: ARID1B |
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Mutation Data (+)
# Cell Line/Tumor sample Tissue of Origin cDNA change Protein change Source FATHMM Prediction PolyPhen2 Prediction 1 587234 LARGE INTESTINE c.6581G>A p.R2194H COSMIC PASSENGER/OTHER Probably Damaging 2 587256 LARGE INTESTINE c.3349A>C p.S1117R COSMIC NP NP 3 587256 LARGE INTESTINE c.5118G>T p.L1706F COSMIC NP NP 4 587278 LARGE INTESTINE c.1528G>A p.G510R COSMIC NP NP 5 587302 LARGE INTESTINE c.5822C>T p.P1941L COSMIC NP NP 6 587316 LARGE INTESTINE c.1640C>T p.P547L COSMIC NP NP 7 587316 LARGE INTESTINE c.4250C>T p.P1417L COSMIC NP NP 8 587316 LARGE INTESTINE c.797G>C p.G266A COSMIC NP NP 9 587316 LARGE INTESTINE c.803G>C p.G268A COSMIC NP NP 10 8012854 PANCREAS c.3281G>A p.G1094D COSMIC NP NP
*NP: Not Predicted -
Copy number variation and expression profile (+)
Tissue Type Mean Expression Value Median Expression Value Mean CNV Median CNV AUTONOMIC GANGLIA 7.6036 7.6493 -0.0247 -0.0422 BILIARY TRACT 6.7539 6.967 -0.2639 -0.1849 BONE 6.7266 6.6809 -0.1242 -0.0035 BREAST 6.7979 6.80115 -0.2187 -0.08784 CENTRAL NERVOUS SYSTEM 6.7125 6.7264 -0.2289 -0.1198 ENDOMETRIUM 6.7786 6.7847 0.0123 0.0164 HAEMATOPOIETIC AND LYMPHOID TISSUE 7.5627 7.4905 -0.0447 -0.002797 KIDNEY 6.3270 6.3678 -0.3461 -0.2409 LARGE INTESTINE 6.9173 6.88315 -0.0780 -0.03335 LIVER 6.8063 6.8844 -0.0565 0.06515 
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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
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Tertiary structure (+)
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Structure Domains (+)
1. PFAM Domains:Domain ID Domain Name Start Site End Site E-value PB006715 Pfam-B_6715 32 132 6.6e-05 PB007257 Pfam-B_7257 371 451 4.4e-11 PB006834 Pfam-B_6834 693 984 1.5e-14 PB000165 Pfam-B_165 998 1034 3.6e-17 PF01388 ARID 1052 1140 9e-28 PF12031 DUF3518 1926 2182 3e-149 2. Superfamily Domains:Domain ID Start Site End Site E-value 0049275 1038 1151 8.37e-32 0051071 2066 2206 1.51e-04 -
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($ptm_tr != '') { echo""; include("$dir/ptm.html"); echo"S. No. Position Amino acid Type Post translational modifications are not found!!";} ?> -
Other Databases Link (+)
Proteomics DB COSMIC Gene Atlas STRING PIR ARID1B ARID1B ARID1B ENSP00000344546 Q8NFD5 QuickGO HGNC Ensembl Genome Browser TreeFam UniProt Q8NFD5 ARID1B ENSP00000344546 ARID1B Q8NFD5 Expression Atlas Protein Atlas OMIM IntAct PharmGKB ARID1B ENSP00000344546 614556 Q8NFD5 PA134909463