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Gene: ENSG00000130520 |
Summary for LSM4 |
 Gene summary |
| Gene information | Ensembl ID | ENSG00000130520 | Gene symbol | LSM4 |
| Gene name | LSM4 homolog, U6 small nuclear RNA and mRNA degradation associated | |
| HGNC | 17259 | |
| Entrez ID | 25804 | |
| Gene type | protein_coding | |
| Synonyms | LSM4|YER112W | |
| UniProtAcc | Q9Y4Z0 |
| 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 |
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Structure and expression level for LSM4 |
| 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 |
| LSM4 | 5.95e+03 | 1.30e+00 | 1.87e-01 | 6.95e+00 | 3.54e-12 | 1.09e-10 | BLCA |
| 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 |
| LSM4 | 4.42e+03 | 1.07e+00 | 1.72e-01 | 6.24e+00 | 4.29e-10 | 4.35e-09 | LIHC |
| LSM4 | 5.77e+03 | 1.38e+00 | 7.10e-02 | 1.94e+01 | 1.42e-83 | 3.68e-82 | BRCA |
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Sex-biased somatic mutation for LSM4 |
| ∗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 LSM4 |
| 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 |
| 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 |
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Exon skipping events with PSI in TCGA for LSM4 |
| ∗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 |
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RNA A-to-I editing events in TCGA for LSM4 |
| ∗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 |
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Sex-biased TF-Gene network for LSM4 |
| TFs related to LSM4. ∗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 |
| LSM4 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 LSM4 |
| RBPs related to ES in LSM4. ∗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 |
| ACC | ANKHD1 | exon_skip_316424 | 1.57e+01 | 9.97e-01 | 1.51e+01 | 2.74e-03 | Male-biased |
| UVM | ANKHD1 | exon_skip_316424 | 1.44e+01 | 9.99e-01 | 1.38e+01 | 3.81e-04 | Male-biased |
| COAD | ANKHD1 | exon_skip_316424 | 1.47e+01 | 9.99e-01 | 1.42e+01 | 1.41e-03 | Male-biased |
| CHOL | ANKHD1 | exon_skip_316424 | 1.52e+01 | 3.02e-03 | 1.57e+01 | 9.97e-01 | Female-biased |
| KIRP | ANKHD1 | exon_skip_316424 | 1.45e+01 | 9.13e-04 | 1.51e+01 | 9.99e-01 | Female-biased |
| ESCA | ANKHD1 | exon_skip_316424 | 1.41e+01 | 4.61e-03 | 1.46e+01 | 9.95e-01 | Female-biased |
| READ | ANKHD1 | exon_skip_316424 | 1.43e+01 | 6.31e-04 | 1.49e+01 | 9.99e-01 | Female-biased |
| THCA | ANKHD1 | exon_skip_316424 | 1.50e+01 | 1.00e+00 | 1.44e+01 | 3.27e-04 | Male-biased |
| PCPG | ANKHD1 | exon_skip_316424 | 1.47e+01 | 9.99e-01 | 1.42e+01 | 1.25e-03 | Male-biased |
| LGG | ANKHD1 | exon_skip_316424 | 1.39e+01 | 6.28e-04 | 1.45e+01 | 9.99e-01 | Female-biased |
| PAAD | ANKHD1 | exon_skip_316424 | 1.41e+01 | 5.74e-04 | 1.47e+01 | 9.99e-01 | Female-biased |
| KIRC | ANKHD1 | exon_skip_316424 | 1.43e+01 | 2.21e-03 | 1.48e+01 | 9.98e-01 | Female-biased |
| BLCA | ANKHD1 | exon_skip_316424 | 1.45e+01 | 2.97e-03 | 1.50e+01 | 9.97e-01 | Female-biased |
| SARC | ANKHD1 | exon_skip_316424 | 1.43e+01 | 1.82e-03 | 1.49e+01 | 9.98e-01 | Female-biased |
| LSM4 related ES. ∗Only the gene encode RBP might with this result. ∗For more information please check Sex-biased RBP-ES network in cancer. |
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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 |
| Female-specific eQTL regulation. |
| SNP ID | SNP Info | Position to Gene | Effect Score | FDR | Cancer Type | Biased Type |
| rs12976961 | chr19:28116976:C:T | - | 0.0658098616908444 | 0.00546262047975553 | LGG | Male-baised eQTL |
| rs10411329 | chr19:20544657:T:C | - | 0.0413233246585687 | 0.0163692242541539 | LGG | Male-baised eQTL |
| rs8108331 | chr19:20537089:C:T | - | 0.0400990368868864 | 0.0274095992242232 | LGG | Male-baised eQTL |
| rs7248501 | chr19:28113065:T:A | - | -0.0567610310807879 | 0.0313562672657718 | LGG | Male-baised eQTL |
| rs2023160 | chr19:20542272:A:C | - | 0.0385111987254275 | 0.0359000207761202 | LGG | Male-baised eQTL |
| rs10854028 | chr19:20540193:A:G | - | 0.0385073148450684 | 0.036009720704802 | LGG | Male-baised eQTL |
| rs7256767 | chr19:20541093:G:A | - | 0.0383666681852703 | 0.0365015748578151 | LGG | Male-baised eQTL |
| rs35669331 | chr19:20542844:T:C | - | 0.0384206409077561 | 0.0382376989394612 | LGG | Male-baised eQTL |
| rs7246874 | chr19:20544338:A:G | - | 0.0379079487966419 | 0.0499217585819816 | LGG | Male-baised eQTL |
| rs1118424 | chr19:23904924:G:T | - | -0.0607565600063535 | 0.0195190664878141 | COAD | Male-baised eQTL |
| rs4932737 | chr19:23886641:T:C | - | -0.0584334271165444 | 0.0286312942651837 | COAD | Male-baised eQTL |
| rs10412575 | chr19:24186084:A:G | - | -0.0617738295465 | 0.032073162364883 | COAD | Male-baised eQTL |
| rs139972478 | chr19:24150530:C:T | - | -0.0635610848987852 | 0.0342966535186603 | COAD | Male-baised eQTL |
| rs10417168 | chr19:24151324:T:A | - | -0.0635610848987852 | 0.0342966535186603 | COAD | Male-baised eQTL |
| rs141668226 | chr19:24152205:C:T | - | -0.0635610848987852 | 0.0342966535186603 | COAD | Male-baised eQTL |
| rs16982728 | chr19:24186760:A:C | - | -0.0610577822950842 | 0.0358806207169447 | COAD | Male-baised eQTL |
| rs10407383 | chr19:24134099:G:A | - | -0.0631855552960115 | 0.0366373482865149 | COAD | Male-baised eQTL |
| rs2099360 | chr19:24147361:C:G | - | -0.060652678006098 | 0.0372499705382867 | COAD | Male-baised eQTL |
| rs2082493 | chr19:24147554:G:T | - | -0.060652678006098 | 0.0372499705382867 | COAD | Male-baised eQTL |
| rs10423819 | chr19:24153857:C:A | - | -0.0627064833189505 | 0.0382883040435281 | COAD | Male-baised eQTL |
| rs10412875 | chr19:17192043:G:A | - | -0.0559632060023735 | 0.0383619479824578 | COAD | Male-baised eQTL |
| rs10415281 | chr19:9488358:T:C | - | 0.0561218118001476 | 0.0394484038619396 | COAD | Male-baised eQTL |
| rs4416149 | chr19:24093551:G:T | - | -0.060311696062826 | 0.0395248765518814 | COAD | Male-baised eQTL |
| rs112813223 | chr19:24109053:A:G | - | -0.060311696062826 | 0.0395248765518814 | COAD | Male-baised eQTL |
| rs8113172 | chr19:24121251:C:T | - | -0.060311696062826 | 0.0395248765518814 | COAD | Male-baised eQTL |
| rs8110507 | chr19:24099470:G:T | - | -0.060344351660591 | 0.0397083801419171 | COAD | Male-baised eQTL |
| rs4452076 | chr19:24143981:T:C | - | -0.0600114799323186 | 0.0415584408398472 | COAD | Male-baised eQTL |
| rs12609544 | chr19:24142763:G:C | - | -0.0599148479930116 | 0.0415717979998328 | COAD | Male-baised eQTL |
| rs9676874 | chr19:24148268:T:C | - | -0.0599148479930116 | 0.0415717979998328 | COAD | Male-baised eQTL |
| rs17000162 | chr19:24185347:G:A | - | -0.0633746357445409 | 0.0431532883794126 | COAD | Male-baised eQTL |
| rs7257096 | chr19:24098965:T:C | - | -0.0595740376161962 | 0.0440277831386872 | COAD | Male-baised eQTL |
| rs11668697 | chr19:24108247:A:C | - | -0.0595740376161962 | 0.0440277831386872 | COAD | Male-baised eQTL |
| rs9676521 | chr19:24115537:T:G | - | -0.0595740376161962 | 0.0440277831386872 | COAD | Male-baised eQTL |
| rs3844579 | chr19:24120337:A:G | - | -0.0595740376161962 | 0.0440277831386872 | COAD | Male-baised eQTL |
| rs7260280 | chr19:24140020:T:G | - | -0.0591598881897981 | 0.0464084124287749 | COAD | Male-baised eQTL |
| rs985196 | chr19:24185251:A:G | - | -0.055383663783733 | 0.0470676340418524 | COAD | Male-baised eQTL |
| rs139885231 | chr19:24116489:A:G | - | -0.0588192606817845 | 0.049097867315869 | COAD | Male-baised eQTL |
| rs10412517 | chr19:24119111:T:C | - | -0.0588192606817845 | 0.049097867315869 | 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 |
| 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 |
| 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 |
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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 LSM4 |
| Diseases associated with this gene (DisGeNET). |
| Gene ID | Gene Symbol | Disease ID | Disease Name | Number of PMID | Source |
