ArticleBioData mining2022
Robust and rigorous identification of tissue-specific genes by statistically extending tau score.
Article in BioData mining, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
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29 citing papers in PubMed.
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- Cross-tissue enrichment patterns reveal functional clustering in normal human tissues from GTEx.Mammalian genome : official journal of the International Mammalian Genome Society · 2025Article
- A lifespan transcriptomic atlas of the human prefrontal cortex at single-cell resolution.medRxiv : the preprint server for health sciences · 2025Article
- DeepWheat: predicting the effects of genomic variants on gene expression and regulatory activities across tissues and varieties in wheat using deep learning.Genome biology · 2025Article
- A comprehensive analysis of Atlantic salmon gonad and pituitary transcriptomes identifies novel players in sexual maturation.BMC genomics · 2025Article
- A CRISPR/Cas9-based enhancement of high-throughput single-cell transcriptomics.Nature communications · 2025Article
- The Expansion and Diversification of Epigenetic Regulatory Networks Underpins Major Transitions in the Evolution of Land Plants.Molecular biology and evolution · 2025Article
- Gene expression atlas of the Colorado potato beetle (Leptinotarsa decemlineata).Scientific data · 2025Article
- Mining of Root-Specific Expression Genes and Their Core Cis-Regulatory Elements in Plants.International journal of molecular sciences · 2025Article
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2 authors.
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Abstract
objectivesIn this study, we aimed to identify tissue-specific genes for various human tissues/organs more robustly and rigorously by extending the tau score algorithm.
introductionTissue-specific genes are a class of genes whose functions and expressions are preferred in one or several tissues restrictedly. Identification of tissue-specific genes is essential for discovering multi-cellular biological processes such as tissue-specific molecular regulations, tissue development, physiology, and the pathogenesis of tissue-associated diseases. MATERIALS AND
methodsGene expression data derived from five large RNA sequencing (RNA-seq) projects, spanning 96 different human tissues, were retrieved from ArrayExpress and ExpressionAtlas. The first step is categorizing genes using significant filters and tau score as a specificity index. After calculating tau for each gene in all datasets separately, statistical distance from the maximum expression level was estimated using a new meaningful procedure. Specific expression of a gene in one or several tissues was calculated after the integration of tau and statistical distance estimation, which is called as extended tau approach. Obtained tissue-specific genes for 96 different human tissues were functionally annotated, and some comparisons were carried out to show the effectiveness of the extended tau method. RESULTS AND DISCUSSION: Categorization of genes based on expression level and identification of tissue-specific genes for a large number of tissues/organs were executed. Genes were successfully assigned to multiple tissues by generating the extended tau approach as opposed to the original tau score, which can assign tissue specificity to single tissue only.
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