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Gene: ENSG00000196189 |
Summary for SEMA4A |
 Gene summary |
| Gene information | Ensembl ID | ENSG00000196189 | Gene symbol | SEMA4A |
| Gene name | semaphorin 4A | |
| HGNC | 10729 | |
| Entrez ID | 64218 | |
| Gene type | protein_coding | |
| Synonyms | SEMA4A|SemB|FLJ12287|CORD10 | |
| UniProtAcc | Q9H3S1 |
| 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 SEMA4A |
| 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. |
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| Landscape of gene expressions across multiple cancer types. |
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| 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. |
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| Coding Name | Base Mean | log2FoldChange | lfcSE | Stat | P value | P.adjust Value | Cancer Type |
| SEMA4A | 5.22e+02 | 1.60e+00 | 5.83e-01 | 2.74e+00 | 6.05e-03 | 1.62e-02 | CHOL |
| Differentially expressed gene analysis between tumor female and normal female samples. |
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| Coding Name | Base Mean | log2FoldChange | lfcSE | Stat | P value | P.adjust Value | Cancer Type |
| SEMA4A | 1.63e+03 | -1.15e+00 | 3.79e-01 | -3.04e+00 | 2.35e-03 | 1.10e-02 | STAD |
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Sex-biased somatic mutation for SEMA4A |
| ∗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 |
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DNA methylation with beta values for SEMA4A |
| Landscape of DNA methylation across multiple cancer types. |
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| 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 |
| ACC | cg19372602 | chr1:156146416 | CGI:chr1:156135916-156136380 | promoter | 5.36e-01 | 6.75e-01 | -2.14e+00 | 3.25e-02 | 4.27e-02 | -1.39e-01 |
| 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 |
| 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 | cg19372602 | chr1:156146416 | CGI:chr1:156135916-156136380 | promoter | 3.60e-01 | 1.65e-01 | 6.99e+00 | 2.81e-12 | 8.33e-12 | 1.95e-01 |
| THCA | cg19372602 | chr1:156146416 | CGI:chr1:156135916-156136380 | promoter | 1.95e-01 | 3.02e-01 | -5.76e+00 | 8.26e-09 | 1.00e-07 | -1.07e-01 |
Top |
Exon skipping events with PSI in TCGA for SEMA4A |
| ∗Please access ExonSkipDB for exon skipping annotation. |
| Landscape of exon skipping events across multiple cancer types. |
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| 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 SEMA4A |
| ∗Please access CAeditome for RNA editing annotation. |
| Landscape of RNA editing events across multiple cancer types. |
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| 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 |
| STAD | SEMA4A-006 | chr1_156167018_+ | 3.04e-01 | 1.45e-01 | 2.93e+00 | 3.41e-03 | 4.96e-02 | 1.59e-01 |
| ESCA | SEMA4A-006 | chr1_156167043_+ | 5.09e-01 | 3.01e-01 | 2.08e+00 | 3.73e-02 | 4.99e-02 | 2.08e-01 |
| 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 |
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Sex-biased TF-Gene network for SEMA4A |
| TFs related to SEMA4A. ∗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 |
| SEMA4A related gene. ∗Only the gene encode TF might with this result. ∗For more information please check Sex-biased TF-Coding gene network. |
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Sex-biased RBP-ES network for SEMA4A |
| RBPs related to ES in SEMA4A. ∗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. |
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| Cancer Type | RBP | Target ES | Male Edge Score | Male Edge Threshold | Female Edge Score | Female Edge Threshold | Type |
| THYM | SAMD4A | exon_skip_11986 | 8.50e+00 | 9.89e-01 | 8.10e+00 | 4.11e-03 | Male-biased |
| LUAD | SAMD4A | exon_skip_11983 | 6.70e+00 | 9.81e-01 | 6.25e+00 | 2.69e-03 | Male-biased |
| LUAD | SAMD4A | exon_skip_11986 | 8.08e+00 | 7.16e-06 | 9.35e+00 | 9.97e-01 | Female-biased |
| ESCA | SAMD4A | exon_skip_11986 | 9.24e+00 | 9.95e-01 | 8.58e+00 | 2.35e-03 | Male-biased |
| THCA | SAMD4A | exon_skip_11986 | 8.32e+00 | 7.23e-03 | 8.64e+00 | 9.87e-01 | Female-biased |
| SEMA4A 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 |
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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 |
| rs10494252 | chr1:147545166:C:A | - | 0.726066290288897 | 0.0335789612938282 | PAAD | Female-baised eQTL |
| rs10494244 | chr1:147269938:C:T | - | 0.0794251954120427 | 0.0331124921558472 | STAD | Female-baised eQTL |
| rs12403141 | chr1:147278597:G:C | - | 0.0794251954120427 | 0.0331124921558472 | STAD | Female-baised eQTL |
| rs863038 | chr1:159154247:G:C | - | -0.123647209616462 | 0.00712649072384752 | LGG | Female-baised eQTL |
| rs863040 | chr1:159154859:T:C | - | -0.123647209616462 | 0.00712649072384752 | LGG | Female-baised eQTL |
| rs863033 | chr1:159143141:C:T | - | -0.113117797543305 | 0.0170549213743541 | LGG | Female-baised eQTL |
| rs703153 | chr1:159136089:C:G | - | -0.111655460967664 | 0.018977013640108 | LGG | Female-baised eQTL |
| rs863037 | chr1:159149306:T:G | - | -0.111400451910304 | 0.0198355466212405 | LGG | Female-baised eQTL |
| rs863029 | chr1:159138029:T:C | - | -0.111418697963643 | 0.0200066912232291 | LGG | Female-baised eQTL |
| rs1633331 | chr1:159138616:T:C | - | -0.111418697963643 | 0.0200066912232291 | LGG | Female-baised eQTL |
| rs703154 | chr1:159147011:T:C | - | -0.10914925254477 | 0.0248138357024836 | LGG | Female-baised eQTL |
| rs74531985 | chr1:162192862:G:A | - | 0.0885837325046523 | 0.00127035457494047 | KIRC | Female-baised eQTL |
| rs28379491 | chr1:162195879:G:A | - | 0.0885837325046523 | 0.00127035457494047 | KIRC | Female-baised eQTL |
| rs1496120 | chr1:147553127:C:T | - | -0.0746324869719809 | 0.0065068022631478 | KIRC | Female-baised eQTL |
| rs78779556 | chr1:163488011:G:A | - | 0.0486083809662888 | 0.0138042998234647 | LUAD | Female-baised eQTL |
| rs469906 | chr1:162446923:A:T | - | 0.0351192970003696 | 0.0210187059815409 | LUAD | Female-baised eQTL |
| rs113420697 | chr1:162457953:A:G | - | 0.0343383256602782 | 0.0294047410254813 | LUAD | Female-baised eQTL |
| rs455231 | chr1:162459532:T:A | - | 0.0340308650715467 | 0.0308101645415652 | LUAD | Female-baised eQTL |
| rs11804223 | chr1:162442702:G:C | - | 0.0321569248385418 | 0.0336735495598296 | LUAD | Female-baised eQTL |
| rs12737680 | chr1:162444396:A:G | - | 0.0331808755401716 | 0.0340536182942021 | LUAD | Female-baised eQTL |
| rs375808686 | chr1:162453912:C:G | - | 0.0341665174902414 | 0.0355606288738673 | LUAD | Female-baised eQTL |
| rs143267430 | chr1:162455004:T:C | - | 0.0336507124985072 | 0.0356578715589777 | LUAD | Female-baised eQTL |
| rs456093 | chr1:162455199:T:C | - | 0.0336507124985072 | 0.0356578715589777 | LUAD | Female-baised eQTL |
| rs467742 | chr1:162456542:C:A | - | 0.0336507124985072 | 0.0356578715589777 | LUAD | Female-baised eQTL |
| rs425170 | chr1:162457627:T:C | - | 0.0336507124985072 | 0.0356578715589777 | LUAD | Female-baised eQTL |
| rs469903 | chr1:162446761:C:G | - | 0.0339876616082373 | 0.0377004098280582 | LUAD | Female-baised eQTL |
| rs468339 | chr1:162457187:C:T | - | 0.0331220388769399 | 0.039780628095328 | LUAD | Female-baised eQTL |
| rs147491742 | chr1:162461367:C:G | - | 0.0326773332224116 | 0.0405301945056417 | LUAD | Female-baised eQTL |
| rs469809 | chr1:162446742:C:T | - | 0.0324172009657967 | 0.0412861421428839 | LUAD | Female-baised eQTL |
| rs10800058 | chr1:164935503:A:C | - | 0.0318851873724683 | 0.0423561642411884 | LUAD | Female-baised eQTL |
| rs468361 | chr1:162450935:G:A | - | 0.0328828168043586 | 0.0434623830977073 | LUAD | Female-baised eQTL |
| rs464869 | chr1:162451380:C:G | - | 0.0328828168043586 | 0.0434623830977073 | LUAD | Female-baised eQTL |
| rs442604 | chr1:162451438:C:T | - | 0.0328828168043586 | 0.0434623830977073 | LUAD | Female-baised eQTL |
| rs468139 | chr1:162447435:G:A | - | 0.0326847495443454 | 0.0454848947604269 | LUAD | Female-baised eQTL |
| rs469596 | chr1:162447454:T:C | - | 0.0326847495443454 | 0.0454848947604269 | LUAD | Female-baised eQTL |
| rs469051 | chr1:162447612:C:G | - | 0.0326847495443454 | 0.0454848947604269 | LUAD | Female-baised eQTL |
| rs468731 | chr1:162447629:A:G | - | 0.0326847495443454 | 0.0454848947604269 | LUAD | Female-baised eQTL |
| rs469897 | chr1:162447886:T:G | - | 0.0326847495443454 | 0.0454848947604269 | LUAD | Female-baised eQTL |
| rs11582816 | chr1:162449158:G:A | - | 0.0333943494654927 | 0.0462175589631501 | LUAD | Female-baised eQTL |
| rs11584336 | chr1:162449163:C:T | - | 0.0333943494654927 | 0.0462175589631501 | LUAD | Female-baised eQTL |
| rs4085485 | chr1:164196336:C:A | - | 0.0810154996697346 | 0.0217849556780147 | COAD | Female-baised eQTL |
| rs945792 | chr1:164184631:G:A | - | 0.0816217933653091 | 0.0261038218962424 | COAD | Female-baised eQTL |
| rs34224286 | chr1:156042720:C:T | - | -0.147538165642104 | 0.0293560528268415 | COAD | Female-baised eQTL |
| rs4085486 | chr1:164200851:T:C | - | 0.0796973233513651 | 0.0342415696236893 | COAD | Female-baised eQTL |
| rs4085487 | chr1:164200977:T:C | - | 0.0796973233513651 | 0.0342415696236893 | COAD | Female-baised eQTL |
| rs10917945 | chr1:164201989:A:C | - | 0.0796973233513651 | 0.0342415696236893 | COAD | Female-baised eQTL |
| rs11578537 | chr1:164191931:C:A | - | -0.0889437073004973 | 0.0372033234302298 | COAD | Female-baised eQTL |
| rs1415459 | chr1:164190980:G:T | - | -0.0877429350864641 | 0.0422239907562049 | COAD | Female-baised eQTL |
| rs1577838 | chr1:164201830:T:C | - | -0.0877429350864641 | 0.0422239907562049 | COAD | Female-baised eQTL |
| Female-specific eQTL regulation. |
| SNP ID | SNP Info | Position to Gene | Effect Score | FDR | Cancer Type | Biased Type |
| rs285489 | chr1:165491520:G:A | - | 0.0756641459353204 | 0.0107801557847062 | COAD | Male-baised eQTL |
| rs285491 | chr1:165491936:G:A | - | 0.0734103031053079 | 0.0138038887200779 | COAD | Male-baised eQTL |
| rs72700467 | chr1:165152667:C:T | - | -0.101835920239711 | 0.0216059467090043 | COAD | Male-baised eQTL |
| rs72700483 | chr1:165173816:G:A | - | -0.0937939505219249 | 0.0394484038619396 | COAD | Male-baised eQTL |
| rs16840542 | chr1:165173987:T:C | - | -0.0937939505219249 | 0.0394484038619396 | COAD | Male-baised eQTL |
| rs72700479 | chr1:165166858:C:T | - | -0.0934240796114111 | 0.0407350881158196 | COAD | Male-baised eQTL |
| rs2027573 | chr1:165168576:C:T | - | -0.0934240796114111 | 0.0407350881158196 | 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 |
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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: ENSG00000196189 |
| CpG Site: cg06364417 | |
| Position to Gene: gene,exon,UTR | |
| Male Effect: - | |
| Female Effect: -0.241475174372906 | |
 | Gene ID: ENSG00000196189 |
| CpG Site: cg17971328 | |
| Position to Gene: gene | |
| Male Effect: - | |
| Female Effect: -0.473936431158096 |
| Male-specific eQTM regulation. |
| CpG Site | CpG Postion | Position to Gene | Effect Score | FDR | Cor.r | Cor.Pvalue | Cancer Type |
| Female-specific eQTM regulation. |
| CpG Site | CpG Postion | Position to Gene | Effect Score | FDR | Cor.r | Cor.Pvalue | Cancer Type |
| cg06364417 | chr1:156154531 | gene,exon,UTR | -0.241475174372906 | 1.18965914580228e-28 | -0.6542351062858619 | 1.5498979387929837e-32 | LUAD |
| cg17971328 | chr1:156152939 | gene | -0.473936431158096 | 9.39004252136058e-36 | -0.8832028033262284 | 5.9812853033528326e-40 | STAD |
| 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 |
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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 |
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Related disease information of SEMA4A |
| Diseases associated with this gene (DisGeNET). |
| Gene ID | Gene Symbol | Disease ID | Disease Name | Number of PMID | Source |
| ENSG00000196189 | SEMA4A | C1846529 | CONE-ROD DYSTROPHY 10 | 1 | CTD_human |
| ENSG00000196189 | SEMA4A | C1853214 | RETINITIS PIGMENTOSA 35 | 1 | CTD_human |
