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1. Molecules analyzed in SexAnnoDB2. Differential analyses in SexAnnoDB
3. Sex-biased regulations in SexAnnoDB
4. Understanding the annotation of each gene in SexAnnoDB
Search page, example: S100A9
SexAnnoDB search result page
SexAnnoDB annotation result page
1) Gene summary
2) Gene structure and Gene expression level
3) Sex-biased somatic mutation
4) DNA methylation in gene promoter region
5) Exon skipping events with PSI in TCGA
6) RNA A-to-I editing events in TCGA
7) Sex-biased TF-Gene network of gene
8) Sex-biased RBP-ES network of gene
9) Sex-biased CeRNA regulation of gene
10) Sex-biased eQTL regulation of gene
11) Sex-biased eQTM regulation of gene
12) Sex-biased sQTL regulation of gene
13) Sex-biased sQTM regulation of gene
14) Related disease information of gene
5. Understanding the analysis result of each cancer in SexAnnoDB
1) Summary of cancer
2) Sex-biased mutation in cancer
3) Top 20 Sex-biased TF-Gene regulation in cancer
4) Top 20 Sex-biased RBP-ES regulation in cancer
5) Sex-biased cis-eQTL regulation in cancer
6) Sex-biased cis-sQTL regulation in cancer
7) Sex-biased cis-eQTM regulation in cancer
8) Sex-biased cis-sQTM regulation in cancer
6. Download data and contact us
1. Molecules analyzed in SexAnnoDBWe analyzed molecules of different levels across 28 cancer types, which have at least five patients in each gender group of TCGA. The molecules include the genome level (somatic mutation, single-nucleotide polymorphisms), epigenome level (DNA methylation), transcriptome level (coding gene, lncRNA, miRNA, exon skipping events, and RNA editing events), and proteome level (protein).
2. Differential analysis in SexAnnoDB
Sex-biased Molecules: The Molecules show differential expression between female and male in tumor tissues and don't show differential expression in normal tissues.
Male specific differential molecules: The Molecules show differential expression between tumor and normal in male patients and don't show differential expression in female patients.
Female specific differential molecules: The Molecules show differential expression between tumor and normal in female patients and don't show differential expression in male patients.
3. Sex-biased regulation in SexAnnoDBSex-biased TF-Gene network: Sex-biased transcript factor-gene regulations network.
Sex-biased RBP-ES network: Sex-biased RNA binding protein-exon skipping events regulations network.
Sex-biased CeRNA regulation: Sex-biased competing endogenous RNA regulations(miRNA-lncRNA-mRNA).
Sex-biased eQTL regulation: Sex-biased expression quantitative trait loci.
Sex-biased sQTL regulation: Sex-biased splicing quantitative trait loci.
Sex-biased eQTM regulation:Sex-biased expression quantitative trait methylation.
Sex-biased sQTM regulation: Sex-biased splicing quantitative trait methylation.
4. Understanding annotation of SexAnnoDB Search page, example: S100A9- Input query: Gene symbol or Ensembl gene ID.
SexAnnoDB search result pageSelect your gene from the gene list.
SexAnnoDB annotation result pageThese are gene's annotation categories for your query with links to their corresponding annotation parts.
1) Gene summary categoryThis category shows the information of the gene. It shows each gene's overall information from basic information such as symbol, name, and Entrez ID.
2) 'Gene structure and Gene expression level' categoryThis category provides the known gene models with ES events and RNA editing events based on GENCODE basic v.22 and the expression levels in cancer (TCGA), sex-biased genes, female-specific DEmRNAs, and male-specific DEmRNAs.
3) 'Sex-biased somatic mutation' categoryThis category provides mutation in the gene.
Note: There is no result of S100A9 (ENSG00000163220) in this category. Here is the result of MUC16 (ENSG00000181143) as an example.
4) 'DNA methylation in gene promoter region' categoryThis category provides CpG sites in genes, sex-biased CpG sites, female-specific DECpGs, and male-specific DECpGs.
5) 'Exon skipping events with PSI in TCGA' categoryThis category provides Exon skipping events with PSI in, sex-biased ES events, female-specific DE ESs, and male-specific DESs.
Note: There is no result of S100A9 (ENSG00000163220) in this category. Here is the result of RALGPS2 (ENSG00000116191) as an example.
6) 'RNA A-to-I editing events in TCGA' categoryThis category provides RNA A-to-I editing events.
Note: There is no result of S100A9 (ENSG00000163220) in this category. Here is the result of DBT (ENSG00000137992) as an example.
7) 'Sex-biased TF-Gene network of gene' categoryThis category provides Sex-biased TF-Gene network of gene.
8) 'Sex-biased RBP-ES network of gene' categoryThis category provides Sex-biased RBP-ES network of gene.
Note: There is no result of S100A9 (ENSG00000163220) in this category. Here is the result of PACSIN3 (ENSG00000165912) as an example.
9) 'Sex-biased CeRNA regulation of gene' categoryThis category provides Sex-biased CeRNA regulation of gene.
Note: There is no result of S100A9 (ENSG00000163220) in this category. Here is the result of TSPAN6 (ENSG00000000003) as an example.
10) 'Sex-biased eQTL regulation of gene' categoryThis category provides Sex-biased eQTL regulation of gene. The figures only show the pairs with FDR<1e-5. For more information please check the below table.
Note: There is no result of S100A9 (ENSG00000163220) in this category. Here is the result of CYP26B1 (ENSG00000003137) as an example.
11) 'Sex-biased eQTM regulation of gene' categoryThis category provides Sex-biased eQTM regulation of gene. The figures only show the pairs with FDR<1e-5. For more information please check the below table.
12) 'Sex-biased sQTL regulation of gene' categoryThis category provides Sex-biased sQTL regulation of gene. The figures only show the pairs with FDR<1e-5. For more information please check the below table.
Note: There is no result of S100A9 (ENSG00000163220) in this category. Here is the result of GCFC2 (ENSG00000005436) as an example.
13) 'Sex-biased sQTM regulation of gene' categoryThis category provides Sex-biased sQTM regulation of gene. The figures only show the pairs with FDR<1e-5. For more information please check the below table.
Note: There is no result of S100A9 (ENSG00000163220) in this category. Here is the result of LAS1L (ENSG00000001497) as an example.
14) 'Related disease information of gene' categoryThis category provides related diseases and drug information of genes.
5. Understanding the analysis results of each cancer in SexAnnoDB SexAnnoDB annotation cancer result pageThese are annotation categories for your query 'Browse the sex-biased gene by cancer type' with links to their corresponding annotation parts (Example cancer type: BLCA).
1) Summary of cancerThis category shows the information of the cancer.
2) 'Sex-biased mutation in cancer' categoryThis category provides Sex-biased mutation in cancer.
3) 'Top 20 Sex-biased TF-Gene regulation in cancer' categoryThis category provides top 20 Sex-biased TF-Gene regulation in cancer.
4) 'Top 20 Sex-biased RBP-ES regulation in cancer' categoryThis category provides top 20 Sex-biased RBP-ES regulation in cancer.
5) 'Sex-biased cis-eQTL regulation in cancer' categoryThis category provides top sex-biased cis-eQTL pairs (FDR<1e-5) in cancer. For more information please see the download page.
6) 'Sex-biased cis-sQTL regulation in cancer' categoryThis category provides top sex-biased cis-sQTL pairs (FDR<1e-5) in cancer. For more information please see the download page.
7) 'Sex-biased cis-eQTM regulation in cancer' categoryThis category provides top sex-biased cis-eQTM pairs (FDR<1e-5) in cancer. For more information please see the download page.
8) 'Sex-biased cis-sQTM regulation in cancer' categoryThis category provides top sex-biased cis-sQTM pairs (FDR<1e-5) in cancer. For more information please see the download page.
6. Download data and contact usPlease go to download page and contact page.
