|
||||||
|
 | |
| |
| |
| |
| |
| |
| |
| |
| |
| |
| |
| |
| |
|
Gene: ENSG00000065978 |
Summary for YBX1 |
 Gene summary |
| Gene information | Ensembl ID | ENSG00000065978 | Gene symbol | YBX1 |
| Gene name | Y-box binding protein 1 | |
| HGNC | 8014 | |
| Entrez ID | 4904 | |
| Gene type | protein_coding | |
| Synonyms | YBX1|YB-1|YB1|DBPB|NSEP-1|MDR-NF1|BP-8|CSDB|CSDA2 | |
| UniProtAcc | P67809 |
| 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 YBX1 |
| 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 |
| 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 |
Top |
Sex-biased somatic mutation for YBX1 |
| ∗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 YBX1 |
| 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 |
| 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 |
Top |
Exon skipping events with PSI in TCGA for YBX1 |
| ∗Please access ExonSkipDB for exon skipping annotation. |
| Landscape of exon skipping events across multiple cancer types. |
 |
| 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 |
| LUSC | exon_skip_4894 | 9.67e-01 | 8.61e-01 | 6.63e+00 | 3.31e-11 | 3.50e-10 | 1.06e-01 |
| 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 YBX1 |
| ∗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 YBX1 |
| TFs related to YBX1. ∗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 |
| YBX1 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 YBX1 |
| RBPs related to ES in YBX1. ∗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 |
| CHOL | YBX2 | exon_skip_4902 | 1.04e+01 | 1.16e-02 | 1.08e+01 | 9.87e-01 | Female-biased |
| READ | YBX2 | exon_skip_4894 | 1.05e+01 | 9.89e-01 | 1.02e+01 | 9.33e-03 | Male-biased |
| GBM | YBX2 | exon_skip_4894 | 1.03e+01 | 9.82e-01 | 1.00e+01 | 1.68e-02 | Male-biased |
| YBX1 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 |
| rs16835734 | chr1:33709751:A:G | - | 0.171648152978482 | 0.00503689313270917 | HNSC | Female-baised eQTL |
| rs55885968 | chr1:33705776:G:A | - | 0.164795738537264 | 0.00897345727335341 | HNSC | Female-baised eQTL |
| rs72662071 | chr1:33701509:G:C | - | 0.149941939014246 | 0.0277959235397705 | HNSC | Female-baised eQTL |
| rs7539225 | chr1:41647852:A:G | - | 0.368931813462197 | 0.0234649494607347 | KIRP | Female-baised eQTL |
| rs7541822 | chr1:41648022:T:C | - | 0.368931813462197 | 0.0234649494607347 | KIRP | Female-baised eQTL |
| rs28684469 | chr1:41646520:G:A | - | 0.407323760078771 | 0.025713086318634 | KIRP | Female-baised eQTL |
| rs78410207 | chr1:41646956:A:G | - | 0.407323760078771 | 0.025713086318634 | KIRP | Female-baised eQTL |
| rs12038624 | chr1:39535593:G:T | - | 0.173839163452196 | 0.0179280038908194 | LIHC | Female-baised eQTL |
| rs12031730 | chr1:39528743:G:A | - | 0.150075374801109 | 0.048911401136333 | LIHC | Female-baised eQTL |
| rs12038951 | chr1:39528849:C:T | - | 0.150075374801109 | 0.048911401136333 | LIHC | Female-baised eQTL |
| rs56376457 | chr1:43268888:G:A | - | 0.146466245666447 | 0.0109317233503985 | BLCA | Female-baised eQTL |
| rs11210824 | chr1:43269525:G:A | - | 0.146466245666447 | 0.0109317233503985 | BLCA | Female-baised eQTL |
| rs11210828 | chr1:43282012:C:G | - | 0.149285699175151 | 0.0459137034562398 | BLCA | Female-baised eQTL |
| rs6700461 | chr1:48329435:A:T | - | 0.0566776082786408 | 0.0441887824409638 | COAD | Female-baised eQTL |
| Female-specific eQTL regulation. |
| SNP ID | SNP Info | Position to Gene | Effect Score | FDR | Cancer Type | Biased Type |
| rs12404674 | chr1:34976712:T:A | - | 0.154669972355483 | 0.0402252246738858 | THCA | Male-baised eQTL |
| rs2810575 | chr1:41451357:G:A | - | -0.13582145353056 | 0.0053179814799933 | SARC | Male-baised eQTL |
| rs2492073 | chr1:41451371:G:C | - | -0.13582145353056 | 0.0053179814799933 | SARC | Male-baised eQTL |
| rs12407411 | chr1:42858007:T:C | - | 0.0945315211727856 | 0.0353713113927742 | LGG | Male-baised eQTL |
| rs4406620 | chr1:41327093:A:G | - | 0.0735923289698841 | 0.0363513545607045 | LGG | Male-baised eQTL |
| rs35436312 | chr1:41327686:G:A | - | 0.0735923289698841 | 0.0363513545607045 | LGG | Male-baised eQTL |
| rs1316274 | chr1:41327986:G:A | - | 0.0735923289698841 | 0.0363513545607045 | LGG | Male-baised eQTL |
| rs12037129 | chr1:41328629:T:C | - | 0.0735923289698841 | 0.0363513545607045 | LGG | Male-baised eQTL |
| rs12040046 | chr1:41331911:A:G | - | 0.0718196776781125 | 0.0396488991587064 | LGG | Male-baised eQTL |
| rs35690915 | chr1:41332327:T:C | - | 0.0718196776781125 | 0.0396488991587064 | LGG | Male-baised eQTL |
| rs12728217 | chr1:41332597:C:T | - | 0.0718196776781125 | 0.0396488991587064 | LGG | Male-baised eQTL |
| rs12752553 | chr1:41332845:T:C | - | 0.0718196776781125 | 0.0396488991587064 | LGG | Male-baised eQTL |
| rs12732820 | chr1:41333101:C:T | - | 0.0718196776781125 | 0.0396488991587064 | LGG | Male-baised eQTL |
| rs12024263 | chr1:41355277:A:G | - | 0.0725878275533777 | 0.047459854368339 | LGG | Male-baised eQTL |
| rs72667608 | chr1:41329101:A:G | - | 0.0710798916384648 | 0.0486715311770132 | LGG | Male-baised eQTL |
| rs72667610 | chr1:41329138:G:A | - | 0.0710798916384648 | 0.0486715311770132 | LGG | Male-baised eQTL |
| rs12407412 | chr1:42858030:T:C | - | 0.091800555039417 | 0.0486855028546748 | LGG | Male-baised eQTL |
| rs35282355 | chr1:41608206:G:A | - | -0.0860729303022551 | 0.0193023838088574 | KIRC | Male-baised eQTL |
| rs2781237 | chr1:43254750:T:C | - | -0.0529413095863898 | 0.00108412196836557 | BLCA | Male-baised eQTL |
| rs41270815 | chr1:39350874:G:A | - | 0.039678543729422 | 0.0186498319196801 | BLCA | Male-baised eQTL |
| rs11579242 | chr1:47749707:A:G | - | 0.0509606076637021 | 0.0186328598371463 | LUAD | Male-baised eQTL |
| rs4660282 | chr1:44584319:A:G | - | 0.0729589997617895 | 0.0188660998822958 | LUAD | Male-baised eQTL |
| rs2378722 | chr1:44583807:A:G | - | 0.0727828003103583 | 0.0193839867335606 | LUAD | Male-baised eQTL |
| rs11583664 | chr1:47752418:C:A | - | 0.0513416334987592 | 0.0212344890430779 | LUAD | Male-baised eQTL |
| rs17473371 | chr1:34699884:T:C | - | 0.0533736160810876 | 0.0368456853682581 | LUAD | Male-baised eQTL |
| rs1932770 | chr1:34700315:G:C | - | 0.0533736160810876 | 0.0368456853682581 | LUAD | Male-baised eQTL |
| rs1932769 | chr1:34700319:A:G | - | 0.0533736160810876 | 0.0368456853682581 | LUAD | Male-baised eQTL |
| rs1932768 | chr1:34700371:G:A | - | 0.0533736160810876 | 0.0368456853682581 | LUAD | Male-baised eQTL |
| rs5006399 | chr1:34702503:C:A | - | 0.0533736160810876 | 0.0368456853682581 | LUAD | Male-baised eQTL |
| rs6680562 | chr1:34702672:G:A | - | 0.0533736160810876 | 0.0368456853682581 | LUAD | Male-baised eQTL |
| rs1572459 | chr1:34700171:G:A | - | 0.0532961889313664 | 0.0377246754300888 | LUAD | Male-baised eQTL |
| rs12029645 | chr1:34703915:T:C | - | 0.0532329329913858 | 0.0384692316090746 | LUAD | Male-baised eQTL |
| rs12028913 | chr1:34703963:A:G | - | 0.0532329329913858 | 0.0384692316090746 | LUAD | Male-baised eQTL |
| rs17473524 | chr1:34704714:T:C | - | 0.0532329329913858 | 0.0384692316090746 | LUAD | Male-baised eQTL |
| rs57407915 | chr1:34704722:T:G | - | 0.0532329329913858 | 0.0384692316090746 | LUAD | Male-baised eQTL |
| rs59372458 | chr1:34704805:A:C | - | 0.0532329329913858 | 0.0384692316090746 | LUAD | Male-baised eQTL |
| rs17433327 | chr1:34705085:A:G | - | 0.0532329329913858 | 0.0384692316090746 | LUAD | Male-baised eQTL |
| rs17433361 | chr1:34705353:C:T | - | 0.0532329329913858 | 0.0384692316090746 | LUAD | Male-baised eQTL |
| rs72902282 | chr1:34707130:T:C | - | 0.0529202747009283 | 0.0420733886855013 | LUAD | Male-baised eQTL |
| rs112489735 | chr1:34707490:G:A | - | 0.0529202747009283 | 0.0420733886855013 | LUAD | Male-baised eQTL |
| rs11584807 | chr1:47754782:C:T | - | 0.0474323144624252 | 0.0428436236641358 | LUAD | Male-baised eQTL |
| rs6656903 | chr1:34702781:C:T | - | 0.0522675714540442 | 0.0443694099904646 | LUAD | Male-baised eQTL |
| rs1934380 | chr1:48775925:G:A | - | 0.0675949389152329 | 0.0189378680612956 | COAD | Male-baised eQTL |
| rs78389368 | chr1:46803350:T:C | - | 0.0592869649452751 | 0.0204384755254063 | COAD | Male-baised eQTL |
| rs6701668 | chr1:38379913:C:A | - | 0.0265951463231431 | 0.0405445397800227 | COAD | Male-baised eQTL |
| rs11210654 | chr1:38383324:G:A | - | 0.026762036810626 | 0.0476936443293832 | COAD | Male-baised eQTL |
| rs11210694 | chr1:38401327:C:A | - | 0.026498937463901 | 0.0481575574797406 | 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: ENSG00000065978 |
| CpG Site: cg15557459 | |
| Position to Gene: gene,enhancer | |
| Male Effect: -0.150955338769182 | |
| Female Effect: - | |
 | Gene ID: ENSG00000065978 |
| CpG Site: cg07603685 | |
| Position to Gene: gene | |
| Male Effect: - | |
| Female Effect: -0.420672612954453 |
| Male-specific eQTM regulation. |
| CpG Site | CpG Postion | Position to Gene | Effect Score | FDR | Cor.r | Cor.Pvalue | Cancer Type |
| cg15557459 | chr1:42686508 | gene,enhancer | -0.150955338769182 | 3.7260114016589e-05 | -0.49584929668812194 | 2.0852394523513792e-07 | PAAD |
| Female-specific eQTM regulation. |
| CpG Site | CpG Postion | Position to Gene | Effect Score | FDR | Cor.r | Cor.Pvalue | Cancer Type |
| cg07603685 | chr1:42692426 | gene | -0.420672612954453 | 1.07449318435485e-13 | -0.4853955847931434 | 9.084507566294187e-16 | LUAD |
| 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 YBX1 |
| Diseases associated with this gene (DisGeNET). |
| Gene ID | Gene Symbol | Disease ID | Disease Name | Number of PMID | Source |
| ENSG00000065978 | YBX1 | C0006142 | Malignant neoplasm of breast | 1 | CTD_human |
| ENSG00000065978 | YBX1 | C0007102 | Malignant tumor of colon | 1 | CTD_human |
| ENSG00000065978 | YBX1 | C0009375 | Colonic Neoplasms | 1 | CTD_human |
| ENSG00000065978 | YBX1 | C0023893 | Liver Cirrhosis, Experimental | 1 | CTD_human |
| ENSG00000065978 | YBX1 | C0027643 | Neoplasm Recurrence, Local | 1 | CTD_human |
| ENSG00000065978 | YBX1 | C0678222 | Breast Carcinoma | 1 | CTD_human |
| ENSG00000065978 | YBX1 | C1257931 | Mammary Neoplasms, Human | 1 | CTD_human |
| ENSG00000065978 | YBX1 | C1458155 | Mammary Neoplasms | 1 | CTD_human |
| ENSG00000065978 | YBX1 | C4704874 | Mammary Carcinoma, Human | 1 | CTD_human |
