ArticleJournal of computational biology : a journal of computational molecular cell biology2022
Tissue Specificity of Gene Expression Evolves Across Mammal Species.
Article in Journal of computational biology : a journal of computational molecular cell biology, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed, 30 citations in OpenAlex.
- Single-cell marker gene clustering: A unified deep learning framework for marker gene-based clustering of single-cell RNA-sequencing data.Quantitative biology (Beijing, China) · 2026Article
- CrossFilt: a cross-species filtering tool that eliminates alignment bias in comparative genomics studies of primates.Genome biology · 2026Article
- LncRNA-Mediated Tissue-Specific Plastic Responses to Salinity Changes in Oysters.International journal of molecular sciences · 2025Article
- Identification of highly expressed genes and efficient core promoters specific to buffalo skeletal muscles.Archives animal breeding · 2025Article
- FEAtl: a comprehensive web-based expression atlas for functional genomics in tropical and subtropical fruit crops.BMC plant biology · 2024Article
- TransTEx: novel tissue-specificity scoring method for grouping human transcriptome into different expression groups.Bioinformatics (Oxford, England) · 2024Article
- Orb2 enables rare-codon-enriched mRNA expression during Drosophila neuron differentiation.Nature communications · 2024Article
- Comprehensive Atlas of Alternative Splicing Reveals NSRP1 Promoting Adipogenesis throughInternational journal of molecular sciences · 2024Article
- CellTICS: an explainable neural network for cell-type identification and interpretation based on single-cell RNA-seq data.Briefings in bioinformatics · 2023Article
- Expression Profile of Housekeeping Genes and Tissue-Specific Genes in Multiple Tissues of Pigs.Animals : an open access journal from MDPI · 2022Article
- Robust and rigorous identification of tissue-specific genes by statistically extending tau score.BioData mining · 2022Article
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
Abstract
Tissue specificity of gene expression sheds light on the tissue-selective manifestation of hereditary disease despite the same DNA across all tissues. The evolutionary path of such tissue specificity provides essential information about the tissue-specific function of genes and the validity of disease animal models. With recent improvements of the sequencing technology, more and more large-scale transcriptomics studies have been conducted among different species across multiple tissues. In this study, we exploit existing transcriptomics resources of humans, cynomolgus macaques, rats, mice, and dogs across 13 tissues. We find that although tissue specificity of homologous gene expression is largely well conserved across species, a total of 380 genes shift or are in the process of shifting their tissue specificity. The tissue-specificity-shifting genes are less conserved than those preserving their tissue specificity or housekeeping genes. Interestingly, tissue-specificity-shifting genes tend to be less conserved at the third codon positions, likely due to their relaxed synonymous codon usage bias. Moreover, compared with genes, cassette exons are more likely to shift their tissue specificity of splicing across the five species.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.