|
||||||
|
 | |
| |
| |
| |
| |
| |
| |
| |
| |
| |
| |
| |
| |
|
Gene: ENSG00000256235 |
Summary for SMIM3 |
 Gene summary |
| Gene information | Ensembl ID | ENSG00000256235 | Gene symbol | SMIM3 |
| Gene name | small integral membrane protein 3 | |
| HGNC | 30248 | |
| Entrez ID | 85027 | |
| Gene type | protein_coding | |
| Synonyms | SMIM3|MSTP150|NID67 | |
| UniProtAcc | Q9BZL3 |
| Drugs associated with this gene(DrugBank). |
| Gene ID | Gene Symbol | Drug ID | Drug Name | Drug Type |
| Cancer therapeutic drugs associated with this gene(NCI). |
| Gene ID | Gene Name | Drug ID | Drug Name | Drug Type | Cancer |
Top |
Structure and expression level for SMIM3 |
| AS events and RNA A-to-I editing events of the gene in TCGA based on Genvode V22 structure. ∗For more information on exon skipping events please check the ExonskipDB database. ∗For more information on exon skipping events please check the CAeditome database. |
 |
| Landscape of gene expressions across multiple cancer types. |
 |
| Differentially expressed gene analysis between tumor male and tumor female samples. |
| Coding Name | Base Mean | log2FoldChange | lfcSE | Stat | P value | P.adjust Value | Cancer Type |
| Differentially expressed gene analysis between tumor male and normal male samples. |
 |
| Coding Name | Base Mean | log2FoldChange | lfcSE | Stat | P value | P.adjust Value | Cancer Type |
| SMIM3 | 4.27e+03 | 1.32e+00 | 1.83e-01 | 7.21e+00 | 5.51e-13 | 1.76e-12 | KIRC |
| Differentially expressed gene analysis between tumor female and normal female samples. |
 |
| Coding Name | Base Mean | log2FoldChange | lfcSE | Stat | P value | P.adjust Value | Cancer Type |
| SMIM3 | 1.88e+03 | 1.11e+00 | 2.41e-01 | 4.62e+00 | 3.88e-06 | 3.59e-05 | HNSC |
| SMIM3 | 1.48e+03 | -1.45e+00 | 8.24e-02 | -1.76e+01 | 4.33e-69 | 7.36e-68 | BRCA |
Top |
Sex-biased somatic mutation for SMIM3 |
| ∗For more information on exon skipping events please check the ExonskipDB database. |
| Gene ID | Cancer Type | Hugo Symbol | Male | Female | pval | or | ci.up | ci.low | adjPval |
Top |
DNA methylation with beta values for SMIM3 |
| Landscape of DNA methylation across multiple cancer types. |
 |
| Differentially expressed CpG sites between male tumor and female tumor patients. |
| Cancer Type | CpG Site | Position | CpG Island | Position to Gene | ave1 | ave2 | wilcoxon.w | wilcoxon.p | padj | dBeta |
| Differentially expressed CpG sites between male tumor and male normal patients. |
| Cancer Type | CpG Site | Position | CpG Island | Position to Gene | ave1 | ave2 | wilcoxon.w | wilcoxon.p | padj | dBeta |
| KIRC | cg04051335 | chr5:150777880 | CGI:chr5:150778661-150779092 | promoter | 6.83e-01 | 8.28e-01 | -2.76e+00 | 5.72e-03 | 7.27e-03 | -1.45e-01 |
| LUSC | cg16646054 | chr5:150778164 | CGI:chr5:150778661-150779092 | UTR,promoter,exon,gene body | 4.85e-01 | 3.15e-01 | 3.60e+00 | 3.20e-04 | 1.26e-03 | 1.70e-01 |
| BLCA | cg16646054 | chr5:150778164 | CGI:chr5:150778661-150779092 | UTR,promoter,exon,gene body | 5.58e-01 | 4.45e-01 | 2.33e+00 | 2.00e-02 | 2.45e-02 | 1.13e-01 |
| LIHC | cg26840062 | chr5:150777518 | CGI:chr5:150778661-150779092 | promoter | 8.30e-01 | 9.38e-01 | -5.77e+00 | 7.95e-09 | 6.61e-08 | -1.09e-01 |
| KIRP | cg16646054 | chr5:150778164 | CGI:chr5:150778661-150779092 | UTR,promoter,exon,gene body | 7.50e-01 | 6.44e-01 | 4.30e+00 | 1.73e-05 | 5.90e-05 | 1.06e-01 |
| CHOL | cg16646054 | chr5:150778164 | CGI:chr5:150778661-150779092 | UTR,promoter,exon,gene body | 4.44e-01 | 6.20e-01 | -2.21e+00 | 2.70e-02 | 3.50e-02 | -1.75e-01 |
| Differentially expressed CpG sites between female tumor and female normal patients. |
| Cancer Type | CpG Site | Position | CpG Island | Position to Gene | ave1 | ave2 | wilcoxon.w | wilcoxon.p | padj | dBeta |
| BRCA | cg16646054 | chr5:150778164 | CGI:chr5:150778661-150779092 | UTR,promoter,exon,gene body | 6.34e-01 | 5.23e-01 | 9.23e+00 | 2.73e-20 | 1.51e-19 | 1.11e-01 |
| LIHC | cg16521454 | chr5:150779389 | CGI:chr5:150778661-150779092 | promoter,gene body | 2.03e-01 | 7.92e-02 | 4.64e+00 | 3.45e-06 | 3.18e-05 | 1.24e-01 |
Top |
Exon skipping events with PSI in TCGA for SMIM3 |
| ∗Please access ExonSkipDB for exon skipping annotation. |
| Differentially expressed exon skipping events between male tumor and female tumor patients. |
| Cancer Type | Exon Skipping | ave.female_T | ave.female_N | wilcoxon.w | wilcoxon.p | padj | dPSI |
| Differentially expressed exon skipping events between male tumor and male normal patients. |
| Cancer Type | Exon Skipping | ave.female_T | ave.female_N | wilcoxon.w | wilcoxon.p | padj | dPSI |
| Differentially expressed exon skipping events between female tumor and female normal patients. |
| Cancer Type | Exon Skipping | ave.female_T | ave.female_N | wilcoxon.w | wilcoxon.p | padj | dPSI |
Top |
RNA A-to-I editing events in TCGA for SMIM3 |
| ∗Please access CAeditome for RNA editing annotation. |
| Differentially expressed RNA editing events between male tumor and female tumor patients. |
| Cancer Type | Transcript | Editing | ave.male_T | ave.female_T | wilcoxon.w | wilcoxon.p | p_adj | dFre |
| Differentially expressed RNA editing events between male tumor and male normal patients. |
| Cancer Type | Transcript | Editing | ave.male_T | ave.female_T | wilcoxon.w | wilcoxon.p | p_adj | dFre |
| Differentially expressed RNA editing events between female tumor and female normal patients. |
| Cancer Type | Transcript | Editing | ave.male_T | ave.female_T | wilcoxon.w | wilcoxon.p | p_adj | dFre |
| Protein coding RNA editing(s). |
| Editing Position | Variant Type | Gene Symbol | Transcript ID | NTchange | AAchange |
Top |
Sex-biased TF-Gene network for SMIM3 |
| TFs related to SMIM3. ∗The female-biased TF-gene edges were identified if Female_Edge_threshold>0.98 and Male_Edge_threshold<=0.98. ∗The male-biased TF-gene edges were identified if Male_Edge_threshold>0.98 and Female_Edge_threshold<=0.98. |
 |
| Cancer Type | TF | Target Gene | Male Edge Score | Male Edge Threshold | Female Edge Score | Female Edge Threshold | Type |
| BRCA | KLF3 | SMIM3 | 3.17e+00 | 6.56e-03 | 4.51e+00 | 9.84e-01 | Female-biased |
| BRCA | TFAP2A | SMIM3 | 3.14e+00 | 7.05e-03 | 4.46e+00 | 9.82e-01 | Female-biased |
| BRCA | TFAP2B | SMIM3 | 3.29e+00 | 6.88e-03 | 4.62e+00 | 9.85e-01 | Female-biased |
| BRCA | TFAP2C | SMIM3 | 3.26e+00 | 7.84e-03 | 4.55e+00 | 9.83e-01 | Female-biased |
| BRCA | ZNF141 | SMIM3 | 3.14e+00 | 5.80e-03 | 4.52e+00 | 9.85e-01 | Female-biased |
| ESCA | CTCFL | SMIM3 | 3.49e+00 | 8.89e-03 | 4.31e+00 | 9.84e-01 | Female-biased |
| ESCA | HKR1 | SMIM3 | 3.69e+00 | 1.33e-02 | 4.43e+00 | 9.81e-01 | Female-biased |
| ESCA | KLF11 | SMIM3 | 3.40e+00 | 7.86e-03 | 4.25e+00 | 9.85e-01 | Female-biased |
| ESCA | KLF3 | SMIM3 | 4.03e+00 | 1.58e-02 | 4.73e+00 | 9.81e-01 | Female-biased |
| ESCA | ZFP64 | SMIM3 | 3.53e+00 | 3.16e-03 | 4.58e+00 | 9.92e-01 | Female-biased |
| ESCA | ZNF141 | SMIM3 | 3.89e+00 | 5.06e-03 | 4.84e+00 | 9.92e-01 | Female-biased |
| ESCA | ZNF283 | SMIM3 | 3.35e+00 | 4.09e-03 | 4.34e+00 | 9.90e-01 | Female-biased |
| ESCA | ZNF30 | SMIM3 | 3.50e+00 | 6.09e-03 | 4.41e+00 | 9.88e-01 | Female-biased |
| ESCA | ZNF394 | SMIM3 | 3.66e+00 | 8.37e-03 | 4.50e+00 | 9.87e-01 | Female-biased |
| ESCA | ZNF529 | SMIM3 | 3.50e+00 | 9.75e-03 | 4.30e+00 | 9.83e-01 | Female-biased |
| ESCA | ZNF610 | SMIM3 | 4.34e+00 | 1.63e-02 | 5.04e+00 | 9.81e-01 | Female-biased |
| ESCA | ZNF611 | SMIM3 | 3.78e+00 | 5.12e-03 | 4.73e+00 | 9.91e-01 | Female-biased |
| ESCA | ZNF792 | SMIM3 | 3.48e+00 | 4.80e-03 | 4.44e+00 | 9.90e-01 | Female-biased |
| SMIM3 related gene. ∗Only the gene encode TF might with this result. ∗For more information please check Sex-biased TF-Coding gene network. |
Top |
Sex-biased RBP-ES network for SMIM3 |
| RBPs related to ES in SMIM3. ∗The female-biased RBP-ES edges were identified if Female_Edge_threshold>0.98 and Male_Edge_threshold<=0.98. ∗The male-biased RBP-ES edges were identified if Male_Edge_threshold>0.98 and Female_Edge_threshold<=0.98. |
| Cancer Type | RBP | Target ES | Male Edge Score | Male Edge Threshold | Female Edge Score | Female Edge Threshold | Type |
| SMIM3 related ES. ∗Only the gene encode RBP might with this result. ∗For more information please check Sex-biased RBP-ES network in cancer. |
Top |
Sex-biased CeRNA regulation of gene |
| Sex-biased CeRNA regulation of gene. |
| Gene ID | ceRNA(lncRNA-miRNA-mRNA) | Group | Cancer Type |
Top |
Sex-biased eQTL regulation of gene |
| Sex-biased eQTL regulation of gene (The figures only show the pairs with FDR <1e-5. For more information please check the below table). |
| eQTL | Description |
| Male-specific eQTL regulation. |
| SNP ID | SNP Info | Position to Gene | Effect Score | FDR | Cancer Type | Biased Type |
| rs12651861 | chr5:158811380:T:C | - | 0.149688561798702 | 0.0157764098756477 | KIRC | Female-baised eQTL |
| rs717864 | chr5:158145206:G:C | - | -0.0534359911585916 | 0.00270122234285527 | LUAD | Female-baised eQTL |
| rs1540944 | chr5:158140091:T:C | - | -0.0479254476905276 | 0.0103896611124823 | LUAD | Female-baised eQTL |
| rs2042157 | chr5:143908268:G:T | - | 0.0487009244900585 | 0.0105667377142165 | LUAD | Female-baised eQTL |
| rs153539 | chr5:152091284:G:C | - | -0.0414197197695357 | 0.0183537185485972 | LUAD | Female-baised eQTL |
| rs59199274 | chr5:154985700:C:T | - | 0.06086618493236 | 0.0243668310677113 | LUAD | Female-baised eQTL |
| rs56187116 | chr5:154933349:G:T | - | 0.0587804087095509 | 0.0353737627860631 | LUAD | Female-baised eQTL |
| rs2421046 | chr5:159289847:G:C | - | -0.153391310731244 | 0.00219229243804721 | COAD | Female-baised eQTL |
| rs17663669 | chr5:159177503:G:A | - | 0.126103424802639 | 0.0332314868813397 | COAD | Female-baised eQTL |
| Female-specific eQTL regulation. |
| SNP ID | SNP Info | Position to Gene | Effect Score | FDR | Cancer Type | Biased Type |
| rs2288808 | chr5:147395748:A:T | - | 0.119616956258628 | 0.00969102925374142 | GBM | Male-baised eQTL |
| rs2288803 | chr5:147396287:G:T | - | 0.121560682242399 | 0.0102539013819777 | GBM | Male-baised eQTL |
| rs10434711 | chr5:150329965:T:G | - | 0.107389446526763 | 0.000758136312762944 | LIHC | Male-baised eQTL |
| rs111653882 | chr5:145395376:G:A | - | 0.0831844915223559 | 0.0383087488388887 | BLCA | Male-baised eQTL |
| rs74659466 | chr5:145390095:T:C | - | 0.0831453350419782 | 0.0428093487933814 | BLCA | Male-baised eQTL |
| rs116809872 | chr5:145392061:T:C | - | 0.0831453350419782 | 0.0428093487933814 | BLCA | Male-baised eQTL |
| rs6880083 | chr5:142439544:G:T | - | 0.123321214800695 | 4.9482097908407e-05 | LUAD | Male-baised eQTL |
| rs7732488 | chr5:142441973:C:A | - | 0.103333184011005 | 0.000869096790934324 | LUAD | Male-baised eQTL |
| rs6880710 | chr5:141592834:A:T | - | 0.112243883437347 | 0.00402295396975438 | LUAD | Male-baised eQTL |
| rs59195780 | chr5:141530694:A:G | - | 0.101170509554434 | 0.0120817317031669 | LUAD | Male-baised eQTL |
| rs60558253 | chr5:148573550:C:T | - | 0.0807233485347825 | 0.0378735875706588 | LUAD | Male-baised eQTL |
| rs7727933 | chr5:148567463:A:G | - | 0.0783400628860166 | 0.038197403623371 | LUAD | Male-baised eQTL |
| rs73268385 | chr5:148569493:T:C | - | 0.0783400628860166 | 0.038197403623371 | LUAD | Male-baised eQTL |
| rs244953 | chr5:155917792:G:A | - | -0.073128655289911 | 0.0462294146097879 | LUAD | Male-baised eQTL |
| rs74447621 | chr5:141738454:C:T | - | 0.0861462675931339 | 0.0486136176148466 | LUAD | Male-baised eQTL |
| rs1465690 | chr5:151567405:G:A | - | -0.101768096743977 | 0.000200221389730841 | COAD | Male-baised eQTL |
| rs1469680 | chr5:151568976:T:C | - | -0.0949003633663476 | 0.000331518117291788 | COAD | Male-baised eQTL |
| rs17056191 | chr5:158768831:C:T | - | 0.0657006057868224 | 0.00698031551503188 | COAD | Male-baised eQTL |
| rs79903251 | chr5:143973051:G:A | - | 0.0875532178490759 | 0.00929298748999482 | COAD | Male-baised eQTL |
| rs17844437 | chr5:141151793:T:C | - | 0.055125360417884 | 0.0116995290574881 | COAD | Male-baised eQTL |
| rs17286891 | chr5:141173193:G:A | - | 0.0533685660034614 | 0.0149064092126819 | COAD | Male-baised eQTL |
| rs2961922 | chr5:160367246:T:C | - | 0.0593722480909874 | 0.0160740031176579 | COAD | Male-baised eQTL |
| rs4448041 | chr5:160360835:G:A | - | 0.0590700086921317 | 0.0167624087513351 | COAD | Male-baised eQTL |
| rs11742097 | chr5:160725924:A:G | - | -0.0468090938424094 | 0.0178067767423823 | COAD | Male-baised eQTL |
| rs17056186 | chr5:158765744:A:T | - | 0.055072709011463 | 0.0187185046515636 | COAD | Male-baised eQTL |
| rs7724022 | chr5:160725417:T:C | - | -0.0461832454673412 | 0.0190384028027162 | COAD | Male-baised eQTL |
| rs7719910 | chr5:150066424:G:T | - | 0.0541286423352963 | 0.031911731524074 | COAD | Male-baised eQTL |
| rs6871262 | chr5:145280921:C:T | - | 0.0320081558848841 | 0.0383435575300782 | COAD | Male-baised eQTL |
| rs1843587 | chr5:145274076:A:C | - | 0.0328171915230281 | 0.0396173604529362 | COAD | Male-baised eQTL |
| rs6871657 | chr5:145281162:C:T | - | 0.0318502570838081 | 0.0397361946343927 | COAD | Male-baised eQTL |
| rs248508 | chr5:141828779:A:G | - | -0.0535420577344989 | 0.0401333125226044 | COAD | Male-baised eQTL |
| rs72815844 | chr5:145252931:A:C | - | 0.0356186090781104 | 0.0422173522706942 | COAD | Male-baised eQTL |
| rs72815854 | chr5:145268915:T:A | - | 0.031973865655221 | 0.0440089938990737 | COAD | Male-baised eQTL |
| rs12515917 | chr5:160724310:T:C | - | -0.044990577833793 | 0.0456087435884311 | COAD | Male-baised eQTL |
| rs7727966 | chr5:160725506:T:C | - | -0.0447738055978953 | 0.0472632777847023 | COAD | Male-baised eQTL |
| rs17103008 | chr5:145275484:G:A | - | 0.0318441571352523 | 0.0476535149809123 | COAD | Male-baised eQTL |
| rs248506 | chr5:141829289:A:G | - | -0.0543150984725223 | 0.0499292479560174 | COAD | Male-baised eQTL |
| Opposite sex-biased eQTL regulation. |
| SNP ID | SNP Info | Position to Gene | Male Effect | Male FDR | Female Effect | Female FDR | Sex-biased Gene in Cancer | Cancer Type |
Top |
Sex-biased eQTM regulation of gene |
| Sex-biased eQTM regulation of gene (The figures only show the pairs with FDR<1e-5. For more information please check the below table). |
| eQTM | Description |
 | Gene ID: ENSG00000256235 |
| CpG Site: cg14580211 | |
| Position to Gene: gene,enhancer | |
| Male Effect: -0.316958388593012 | |
| Female Effect: - | |
 | Gene ID: ENSG00000256235 |
| CpG Site: cg16646054 | |
| Position to Gene: gene,exon,promoter,UTR | |
| Male Effect: - | |
| Female Effect: -0.400331648054669 | |
 | Gene ID: ENSG00000256235 |
| CpG Site: cg14580211 | |
| Position to Gene: gene,enhancer | |
| Male Effect: -0.229428410279548 | |
| Female Effect: - |
| Male-specific eQTM regulation. |
| CpG Site | CpG Postion | Position to Gene | Effect Score | FDR | Cor.r | Cor.Pvalue | Cancer Type |
| cg14580211 | chr5:150781737 | gene,enhancer | -0.316958388593012 | 4.3004872114394e-07 | -0.39378653860409507 | 1.0908621095373967e-09 | LUAD |
| cg14580211 | chr5:150781737 | gene,enhancer | -0.229428410279548 | 1.36895066450879e-14 | -0.4676999612140196 | 5.548877766163491e-18 | BLCA |
| Female-specific eQTM regulation. |
| CpG Site | CpG Postion | Position to Gene | Effect Score | FDR | Cor.r | Cor.Pvalue | Cancer Type |
| cg16646054 | chr5:150778164 | gene,exon,promoter,UTR | -0.400331648054669 | 1.80781444789248e-09 | -0.4289563154779051 | 4.064794714292371e-12 | LGG |
| Opposite sex-biased eQTM regulation. |
| CpG Site | CpG Postion | CpG Island | Position to Gene | Male Effect | Male FDR | Female Effect | Female FDR | Male Cor | Male P-value | Female Cor | Female P-value | Sex-biased Coding Gene | Cancer Type |
Top |
Sex-biased sQTL regulation of gene |
| Sex-biased sQTL regulation of gene (The figures only show the pairs with FDR <1e-5. For more information please check the below table). |
| sQTL | Description |
| Male-specific sQTL regulation. |
| ES ID | Skipped Exon | ORF Anno | SNP ID | SNP Info | SNP Position to ES | Effect Score | FDR | Cancer Type | Biased Type |
| Female-specific sQTL regulation. |
| ES ID | Skipped Exon | ORF Anno | SNP ID | SNP Info | SNP Position to ES | Effect Score | FDR | Cancer Type | Biased Type |
| Opposite sex-biased sQTL regulation. |
| ES ID | Skipped Exon | ORF Anno | SNP ID | SNP Info | SNP Position to ES | Male Effect | Male FDR | Female Effect | Female FDR | Cancer Type |
Top |
Sex-biased sQTM regulation of gene |
| Sex-biased sQTM regulation of gene (The figures only show the pairs with FDR <1e-5. For more information please check the below table). |
| sQTM | Description |
| Male-specific sQTM regulation. |
| EX ID | Skipped Exon | CPG Site | CPG Position | Position to EX Events | Effect Score | FDR | Cor.r | Cor.Pvalue | ORF_anno | Cancer Type |
| Female-specific sQTM regulation. |
| EX ID | Skipped Exon | CPG Site | CPG Position | Position to EX Events | Effect Score | FDR | Cor.r | Cor.Pvalue | ORF_anno | Cancer Type |
| Opposite sex-biased sQTM regulation. |
| EX ID | EX Info | Skipped Exon | CPG Site | CPG Position | CPG Island | Position to EX Events | Male Effect | Male FDR | Female Effect | Female FDR | Male Correlation | Male P-value | Female Correlation | Female P-value | ORF_anno | Cancer Type |
Top |
Related disease information of SMIM3 |
| Diseases associated with this gene (DisGeNET). |
| Gene ID | Gene Symbol | Disease ID | Disease Name | Number of PMID | Source |
