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: NCOA1 |
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Mutation Data (+)
# Cell Line/Tumor sample Tissue of Origin cDNA change Protein change Source FATHMM Prediction PolyPhen2 Prediction 1 22RV1 PROSTATE c.466G>A p.V156I CCLE PASSENGER/OTHER Possibly Damaging 2 A704 KIDNEY c.3226A>G p.I1076V CCLE PASSENGER/OTHER Benign 3 ACCS URINARY TRACT c.3364C>T p.R1122* CCLE NP NP 4 BICR18 UPPER AERODIGESTIVE TRACT c.4164A>G p.Q1388Q CCLE NP NP 5 BICR56 UPPER AERODIGESTIVE TRACT c.1664C>G p.S555C CCLE PASSENGER/OTHER Probably Damaging 6 CALU6 LUNG c.2713G>A p.E905K CCLE PASSENGER/OTHER Benign 7 CW2 LARGE INTESTINE c.3891T>A p.S1297R CCLE PASSENGER/OTHER Possibly Damaging 8 DMS454 LUNG c.1130C>A p.T377N CCLE PASSENGER/OTHER Benign 9 DMS53 LUNG c.2911G>C p.E971Q CCLE PASSENGER/OTHER Benign 10 ECC10 STOMACH c.3059C>A p.T1020K CCLE PASSENGER/OTHER Benign 11 EOL1 HAEMATOPOIETIC AND LYMPHOID TISSUE c.4265C>T p.S1422L CCLE PASSENGER/OTHER Benign 12 FTC133 THYROID c.574A>G p.S192G CCLE PASSENGER/OTHER Benign 13 HCC1954 BREAST c.4117T>C p.S1373P CCLE PASSENGER/OTHER Probably Damaging 14 HCT116 LARGE INTESTINE c.2936C>T p.T979M CCLE PASSENGER/OTHER Possibly Damaging 15 HEC108 ENDOMETRIUM c.333C>A p.S111S CCLE NP NP 16 HEC108 ENDOMETRIUM c.3995A>G p.N1332S CCLE PASSENGER/OTHER Possibly Damaging 17 HEC251 ENDOMETRIUM c.2270A>C p.E757A CCLE PASSENGER/OTHER Probably Damaging 18 HEC59 ENDOMETRIUM c.2887_splice p.G963_splice CCLE NP NP 19 HEC6 ENDOMETRIUM c.2599_splice p.R867_splice CCLE NP NP 20 IGROV1 OVARY c.2887_splice p.G963_splice CCLE NP NP 21 JHUEM7 ENDOMETRIUM c.836C>T p.S279F CCLE PASSENGER/OTHER Probably Damaging 22 JHUEM7 ENDOMETRIUM c.871T>G p.L291V CCLE PASSENGER/OTHER Benign 23 KARPAS620 HAEMATOPOIETIC AND LYMPHOID TISSUE c.26C>T p.S9F CCLE PASSENGER/OTHER Benign 24 KASUMI1 HAEMATOPOIETIC AND LYMPHOID TISSUE c.2599_splice p.R867_splice CCLE NP NP 25 KASUMI2 HAEMATOPOIETIC AND LYMPHOID TISSUE c.565C>T p.R189* CCLE NP NP 26 KMRC20 KIDNEY c.3086G>A p.R1029Q CCLE PASSENGER/OTHER Possibly Damaging 27 KP1NL PANCREAS c.76A>C p.T26P CCLE CANCER Benign 28 KP1N PANCREAS c.76A>C p.T26P CCLE CANCER Benign 29 KPNSI9S AUTONOMIC GANGLIA c.1442T>C p.I481T CCLE PASSENGER/OTHER Benign 30 KYSE520 OESOPHAGUS c.3914C>T p.T1305M CCLE PASSENGER/OTHER Possibly Damaging 31 LN229 CENTRAL NERVOUS SYSTEM c.3625A>G p.M1209V CCLE PASSENGER/OTHER Benign 32 MEWO SKIN c.3824C>T p.S1275F CCLE PASSENGER/OTHER Possibly Damaging 33 MKN7 STOMACH c.2003C>T p.S668F CCLE PASSENGER/OTHER Possibly Damaging 34 NCIH1581 LUNG c.218C>T p.T73I CCLE CANCER Probably Damaging 35 NCIH1944 LUNG c.2045C>T p.S682L CCLE PASSENGER/OTHER Probably Damaging 36 NCIH2066 LUNG c.1984G>T p.G662C CCLE PASSENGER/OTHER Possibly Damaging 37 NCIH2110 LUNG c.2659G>C p.D887H CCLE PASSENGER/OTHER Possibly Damaging 38 NCIH2342 LUNG c.1117C>T p.P373S CCLE PASSENGER/OTHER Benign 39 NCIH82 LUNG c.1761G>T p.E587D CCLE PASSENGER/OTHER Probably Damaging 40 NCIH838 LUNG c.2888G>T p.G963V CCLE PASSENGER/OTHER Probably Damaging 41 RKN SOFT TISSUE c.2753G>A p.C918Y CCLE PASSENGER/OTHER Probably Damaging 42 RKO LARGE INTESTINE c.2465A>G p.E822G CCLE PASSENGER/OTHER Possibly Damaging 43 RKO LARGE INTESTINE c.2509G>T p.D837Y CCLE PASSENGER/OTHER Possibly Damaging 44 SJRH30 SOFT TISSUE c.2323G>C p.V775L CCLE PASSENGER/OTHER Benign 45 SKOV3 OVARY c.3724G>A p.E1242K CCLE PASSENGER/OTHER Possibly Damaging 46 SKUT1 SOFT TISSUE c.3602G>A p.R1201H CCLE PASSENGER/OTHER Possibly Damaging 47 SNU175 LARGE INTESTINE c.2074C>T p.R692W CCLE PASSENGER/OTHER Probably Damaging 48 SNU175 LARGE INTESTINE c.3866C>T p.A1289V CCLE PASSENGER/OTHER Benign 49 SNU407 LARGE INTESTINE c.2570C>T p.A857V CCLE PASSENGER/OTHER Benign 50 SNU719 STOMACH c.291A>G p.S97S CCLE NP NP 51 SNUC2A LARGE INTESTINE c.3143C>T p.P1048L CCLE PASSENGER/OTHER Probably Damaging 52 SQ1 LUNG c.1475A>T p.Q492L CCLE PASSENGER/OTHER Benign 53 T98G CENTRAL NERVOUS SYSTEM c.3995A>G p.N1332S CCLE PASSENGER/OTHER Possibly Damaging 54 TE10 OESOPHAGUS c.1442T>C p.I481T CCLE PASSENGER/OTHER Benign 55 TE9 OESOPHAGUS c.4147_4148GG>TT p.G1383L CCLE PASSENGER/OTHER Probably Damaging 56 TGBC11TKB STOMACH c.157A>G p.N53D CCLE CANCER Probably Damaging 57 VMRCLCD LUNG c.1259G>A p.R420H CCLE PASSENGER/OTHER Benign 58 2334191 LUNG c.2088G>T p.E696D COSMIC PASSENGER/OTHER Possibly Damaging 59 2334191 LUNG c.4216G>T p.D1406Y COSMIC PASSENGER/OTHER Probably Damaging 60 2334199 LUNG c.611C>A p.P204Q COSMIC PASSENGER/OTHER Benign 61 587224 LARGE INTESTINE c.3045A>C p.K1015N COSMIC PASSENGER/OTHER Probably Damaging 62 587376 LARGE INTESTINE c.409T>G p.S137A COSMIC PASSENGER/OTHER Probably Damaging 63 587376 LARGE INTESTINE c.898T>G p.F300V COSMIC PASSENGER/OTHER Possibly Damaging 64 5T SKIN c.3217C>T p.R1073W COSMIC PASSENGER/OTHER Probably Damaging 65 ESO-164 OESOPHAGUS c.1538C>T p.S513L COSMIC PASSENGER/OTHER Benign 66 H1155 LUNG c.770C>T p.T257M COSMIC PASSENGER/OTHER Probably Damaging 67 HCC33T LIVER c.771G>A p.T257T COSMIC NP NP 68 LUAD-CHTN-3090416 LUNG c.2899G>A p.D967N COSMIC PASSENGER/OTHER Possibly Damaging 69 LUAD-RT-S01831 LUNG c.4184A>T p.D1395V COSMIC PASSENGER/OTHER Probably Damaging 70 NCI-H1770 LUNG c.2079_2080CT>TC p.(=) COSMIC NP NP 71 P05-3852 PROSTATE c.1355A>G p.N452S COSMIC PASSENGER/OTHER Benign 72 PD4937a BREAST c.907C>G p.Q303E COSMIC PASSENGER/OTHER Possibly Damaging 73 S01366 LUNG c.1758A>G p.K586K COSMIC NP NP 74 SA053 BREAST c.2743G>T p.E915* COSMIC NP NP 75 SA212 BREAST c.4069A>C p.N1357H COSMIC PASSENGER/OTHER Benign 76 SK01600_M CENTRAL NERVOUS SYSTEM c.2606C>A p.P869H COSMIC PASSENGER/OTHER Probably Damaging 77 SK01600_P CENTRAL NERVOUS SYSTEM c.2606C>A p.P869H COSMIC PASSENGER/OTHER Probably Damaging 78 TCGA-05-4405-01 LUNG c.2517G>A p.A839A COSMIC NP NP 79 TCGA-05-4420-01 LUNG c.909G>T p.Q303H COSMIC PASSENGER/OTHER Benign 80 TCGA-09-1674-01 OVARY c.4137_4138delAG p.E1380fs*15 COSMIC NP NP 81 TCGA-09-2051-01 OVARY c.391G>T p.G131W COSMIC PASSENGER/OTHER Probably Damaging 82 TCGA-13-0793-01 OVARY c.1067C>T p.P356L COSMIC PASSENGER/OTHER Probably Damaging 83 TCGA-18-3416-01 LUNG c.2298G>C p.L766L COSMIC NP NP 84 TCGA-18-5595-01 LUNG c.4044G>T p.M1348I COSMIC PASSENGER/OTHER Benign 85 TCGA-22-4599-01 LUNG c.1800C>G p.N600K COSMIC PASSENGER/OTHER Possibly Damaging 86 TCGA-22-4599-01 LUNG c.3751C>A p.P1251T COSMIC PASSENGER/OTHER Probably Damaging 87 TCGA-34-5236-01 LUNG c.2879T>C p.L960P COSMIC PASSENGER/OTHER Probably Damaging 88 TCGA-38-4632-01 LUNG c.1153C>A p.R385R COSMIC NP NP 89 TCGA-39-5027-01 LUNG c.2712A>T p.S904S COSMIC NP NP 90 TCGA-50-5930-01 LUNG c.337G>T p.G113* COSMIC NP NP 91 TCGA-50-5933-01 LUNG c.1170C>T p.V390V COSMIC NP NP 92 TCGA-50-5944-01 LUNG c.2227T>G p.S743A COSMIC PASSENGER/OTHER Benign 93 TCGA-55-6985-01 LUNG c.113A>G p.Q38R COSMIC CANCER Probably Damaging 94 TCGA-55-7727-01 LUNG c.1331C>G p.S444* COSMIC NP NP 95 TCGA-55-7907-01 LUNG c.2474C>T p.A825V COSMIC PASSENGER/OTHER Benign 96 TCGA-60-2725-01 LUNG c.4077C>G p.P1359P COSMIC NP NP 97 TCGA-61-1913-01 OVARY c.2481G>A p.L827L COSMIC NP NP 98 TCGA-66-2758-01 LUNG c.2304G>T p.L768L COSMIC NP NP 99 TCGA-66-2778-01 LUNG c.3392G>C p.R1131T COSMIC PASSENGER/OTHER Benign 100 TCGA-66-2786-01 LUNG c.1458C>T p.F486F COSMIC NP NP 101 TCGA-67-3771-01 LUNG c.841A>G p.R281G COSMIC PASSENGER/OTHER Benign 102 TCGA-69-7765-01 LUNG c.4060G>C p.E1354Q COSMIC PASSENGER/OTHER Probably Damaging 103 TCGA-69-7974-01 LUNG c.1395T>A p.S465R COSMIC PASSENGER/OTHER Probably Damaging 104 TCGA-85-6175-01 LUNG c.1054C>T p.P352S COSMIC PASSENGER/OTHER Benign 105 TCGA-86-6851-01 LUNG c.2697A>G p.I899M COSMIC PASSENGER/OTHER Benign 106 TCGA-A5-A0VP-01 ENDOMETRIUM c.253C>T p.Q85* COSMIC NP NP 107 TCGA-A6-3809-01 LARGE INTESTINE c.189A>C p.K63N COSMIC CANCER Probably Damaging 108 TCGA-A6-5665-01 LARGE INTESTINE c.3987G>T p.Q1329H COSMIC PASSENGER/OTHER Probably Damaging 109 TCGA-AA-3516-01 LARGE INTESTINE c.4263G>A p.T1421T COSMIC NP NP 110 TCGA-AA-3518-01 LARGE INTESTINE c.4212C>T p.G1404G COSMIC NP NP 111 TCGA-AA-3833-01 LARGE INTESTINE c.2754T>C p.C918C COSMIC NP NP 112 TCGA-AA-3864-01 LARGE INTESTINE c.67C>T p.P23S COSMIC CANCER Benign 113 TCGA-AA-3947-01 LARGE INTESTINE c.2728A>G p.S910G COSMIC PASSENGER/OTHER Benign 114 TCGA-AA-3977-01 LARGE INTESTINE c.2659G>A p.D887N COSMIC PASSENGER/OTHER Possibly Damaging 115 TCGA-AA-A00E-01 LARGE INTESTINE c.1684A>G p.R562G COSMIC PASSENGER/OTHER Probably Damaging 116 TCGA-AA-A00N-01 LARGE INTESTINE c.986G>A p.R329K COSMIC PASSENGER/OTHER Benign 117 TCGA-AA-A010-01 LARGE INTESTINE c.1761G>T p.E587D COSMIC PASSENGER/OTHER Probably Damaging 118 TCGA-AA-A01R-01 LARGE INTESTINE c.3144G>A p.P1048P COSMIC NP NP 119 TCGA-AA-A01R-01 LARGE INTESTINE c.3558G>A p.P1186P COSMIC NP NP 120 TCGA-AG-3580-01 LARGE INTESTINE c.277G>A p.D93N COSMIC PASSENGER/OTHER Possibly Damaging 121 TCGA-AG-A002-01 LARGE INTESTINE c.3217C>T p.R1073W COSMIC PASSENGER/OTHER Probably Damaging 122 TCGA-AN-A0XO-01 BREAST c.483C>A p.H161Q COSMIC PASSENGER/OTHER Probably Damaging 123 TCGA-AP-A056-01 ENDOMETRIUM c.122A>C p.K41T COSMIC CANCER Probably Damaging 124 TCGA-AP-A056-01 ENDOMETRIUM c.2271G>T p.E757D COSMIC PASSENGER/OTHER Probably Damaging 125 TCGA-AP-A056-01 ENDOMETRIUM c.2725A>C p.I909L COSMIC PASSENGER/OTHER Benign 126 TCGA-AP-A0LI-01 ENDOMETRIUM c.2946G>A p.L982L COSMIC NP NP 127 TCGA-AP-A0LM-01 ENDOMETRIUM c.118A>C p.N40H COSMIC CANCER Probably Damaging 128 TCGA-AP-A0LM-01 ENDOMETRIUM c.1853G>T p.R618I COSMIC PASSENGER/OTHER Possibly Damaging 129 TCGA-AP-A0LM-01 ENDOMETRIUM c.917A>G p.E306G COSMIC PASSENGER/OTHER Probably Damaging 130 TCGA-AX-A05Z-01 ENDOMETRIUM c.252A>G p.E84E COSMIC NP NP 131 TCGA-AX-A064-01 ENDOMETRIUM c.1283G>A p.S428N COSMIC PASSENGER/OTHER Benign 132 TCGA-AX-A0J0-01 ENDOMETRIUM c.3163C>T p.R1055* COSMIC NP NP 133 TCGA-AX-A0J1-01 ENDOMETRIUM c.1018G>A p.A340T COSMIC PASSENGER/OTHER Probably Damaging 134 TCGA-B5-A0JY-01 ENDOMETRIUM c.1421C>A p.S474Y COSMIC PASSENGER/OTHER Probably Damaging 135 TCGA-B5-A0JY-01 ENDOMETRIUM c.2797C>A p.L933I COSMIC PASSENGER/OTHER Probably Damaging 136 TCGA-B5-A11G-01 ENDOMETRIUM c.2736A>G p.Q912Q COSMIC NP NP 137 TCGA-B5-A11R-01 ENDOMETRIUM c.2894G>A p.G965E COSMIC PASSENGER/OTHER Probably Damaging 138 TCGA-BS-A0TC-01 ENDOMETRIUM c.2274A>C p.K758N COSMIC PASSENGER/OTHER Probably Damaging 139 TCGA-BS-A0TC-01 ENDOMETRIUM c.346C>A p.L116I COSMIC PASSENGER/OTHER Possibly Damaging 140 TCGA-BS-A0UF-01 ENDOMETRIUM c.2064A>C p.K688N COSMIC PASSENGER/OTHER Probably Damaging 141 TCGA-BS-A0UF-01 ENDOMETRIUM c.896T>G p.F299C COSMIC PASSENGER/OTHER Probably Damaging 142 TCGA-BS-A0UV-01 ENDOMETRIUM c.3797C>A p.S1266Y COSMIC PASSENGER/OTHER Possibly Damaging 143 TCGA-C8-A27B-01 BREAST c.4321G>A p.E1441K COSMIC PASSENGER/OTHER Probably Damaging 144 TCGA-CA-6717-01 LARGE INTESTINE c.65C>T p.S22L COSMIC CANCER Benign 145 TCGA-CF-A1HS-01 URINARY TRACT c.1102C>T p.H368Y COSMIC PASSENGER/OTHER Benign 146 TCGA-CK-5916-01 LARGE INTESTINE c.2296C>A p.L766M COSMIC PASSENGER/OTHER Probably Damaging 147 TCGA-CW-6087-01 KIDNEY c.321A>G p.I107M COSMIC PASSENGER/OTHER Probably Damaging 148 TCGA-D1-A103-01 ENDOMETRIUM c.2692G>A p.A898T COSMIC PASSENGER/OTHER Benign 149 TCGA-D1-A16B-01 ENDOMETRIUM c.184G>T p.V62L COSMIC CANCER Possibly Damaging 150 TCGA-D1-A17Q-01 ENDOMETRIUM c.2092A>C p.S698R COSMIC PASSENGER/OTHER Possibly Damaging 151 TCGA-D5-5541-01 LARGE INTESTINE c.2586T>C p.T862T COSMIC NP NP 152 TCGA-D5-5541-01 LARGE INTESTINE c.2588C>T p.S863F COSMIC PASSENGER/OTHER Benign 153 TCGA-D5-6529-01 LARGE INTESTINE c.92C>T p.T31M COSMIC CANCER Probably Damaging 154 TCGA-D5-6540-01 LARGE INTESTINE c.1948A>G p.I650V COSMIC PASSENGER/OTHER Benign 155 TCGA-DR-A0ZM-01 CERVIX c.412G>C p.E138Q COSMIC PASSENGER/OTHER Probably Damaging 156 TCGA-G2-A2EC-01 URINARY TRACT c.1769C>G p.S590* COSMIC NP NP 157 TCGA-G4-6309-01 LARGE INTESTINE c.1068T>C p.P356P COSMIC NP NP 158 TCGA-GD-A3OP-01 URINARY TRACT c.1582A>G p.N528D COSMIC PASSENGER/OTHER Benign 159 YUAVEY SKIN c.2668C>T p.P890S COSMIC PASSENGER/OTHER Probably Damaging 160 YUKARN SKIN c.3715C>T p.P1239S COSMIC PASSENGER/OTHER Benign 161 YURDE SKIN c.3715C>T p.P1239S 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 (+)
Users must enabled the Java in their browser to see structure.
Users can also download Java from here.Modelled Structure Structures available in PDB 1FM6, 1FM9, 1K4W, 1K74, 1K7L, 1KV6, 1N4H, 1NQ7, 1NRL, 1P8D, 1PZL, 1RDT, 1TFC, 1U3R, 1U3S, 1X76, 1X78, 1X7B, 1X7J, 1XIU, 1XV9, 1XVP, 1YY4, 1YYE, 1ZAF, 2A3I, 2C52, 2FVJ, 2GTK, 2HBH, 2HC4, 2HCD, 2HFP, 2NPA, 2NV7, 2P54, 2PRG, 3BEJ, 3BQD, 3CTB, 3CWD, 3DCT, 3DCU, 3DR1, 3ET1, 3ET3, 3FEI, 3FEJ, 3FUR, 3FXV, 3G8I, 3G9E, 3GYT, 3GYU, 3H0A, 3HC5, 3HC6, 3HVL, 3IPQ, 3IPS, 3IPU, 3KMR, 3LMP, 3OKH, 3OKI, 3OLF, 3OLL, 3OLS, 3OMK, 3OMM, 3OMO, 3OMP, 3OMQ, 3OOF, 3OOK, 3P88, 3P89, 3QT0, 3RUT, 3RUU, 3RVF, 3S9S, 3T03, 3UU7, 3UUA, 3UUD, 3V9Y, 3VN2, 4DK7, 4DK8, 4DM6, 4DM8, 4DQM, 4F9M, 4FGY, 4G1D, 4G1Y, 4G1Z, 4G20, 4G21, 4G2H, 4HEE, 4J5X, 4JYG, 4JYH, 4JYI, 4MG5, 4MG6, 4MG7, 4MG8, 4MG9, 4MGA, 4MGB, 4MGC, 4MGD, -
Structure Domains (+)
1. PFAM Domains:Domain ID Domain Name Start Site End Site E-value PF00989 PAS 115 172 3.3e-07 PF14598 PAS_11 260 369 7.6e-34 PF08832 SRC-1 630 708 3e-27 PF08815 Nuc_rec_co-act 924 973 2.7e-22 PB010879 Pfam-B_10879 980 1076 1.9e-12 PF07469 DUF1518 1149 1204 4.6e-16 PF07469 DUF1518 1212 1268 4.5e-19 2. Superfamily Domains:Domain ID Start Site End Site E-value 0048579 260 365 1.33e-20 0053766 920 966 2.35e-15 0048579 120 184 3.14e-14 0038629 14 87 3.66e-08 -
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. 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 NCOA1 NCOA1 NCOA1 ENSP00000288599 Q15788 QuickGO HGNC Ensembl Genome Browser TreeFam UniProt Q15788 NCOA1 ENSP00000288599 NCOA1 Q15788 Expression Atlas Protein Atlas OMIM IntAct PharmGKB NCOA1 ENSP00000288599 602691 Q15788 PA142672260
