ArticleBMC biology2016
Secondary structure impacts patterns of selection in human lncRNAs.
Article in BMC biology, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.
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Who cites it
28 citing papers in PubMed.
- Long Noncoding RNA Isoform Specificity and Chemical Modification on tRNA-Derived Fragments Leading to Divergent Functions.The American journal of pathology · 2026Review
- A Comprehensive Pipeline for Long Non-Coding RNA Discovery and Characterization in Cancer.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Preferential formation of Z-RNA over intercalated motifs in long noncoding RNA.Genome research · 2024Article
- Probing RNA structural landscapes acrossFrontiers in microbiology · 2024Article
- Emerging roles of long non-coding RNAs in osteosarcoma.Frontiers in molecular biosciences · 2024Review
- Review
- The long non-coding RNA landscape of Candida yeast pathogens.Nature communications · 2021Article
- Comparative genomics in the search for conserved long noncoding RNAs.Essays in biochemistry · 2021Article
- LncRNAs associated with glioblastoma: From transcriptional noise to novel regulators with a promising role in therapeutics.Molecular therapy. Nucleic acids · 2021Review
- From Junk to Function: LncRNAs in CNS Health and Disease.Frontiers in molecular neuroscience · 2021Review
- The Role of Long Non-coding RNAs in Sepsis-Induced Cardiac Dysfunction.Frontiers in cardiovascular medicine · 2021Review
- LncRNAs in Cancer: From garbage to Junk.Cancers · 2020Review
- The role of long noncoding RNAs in hepatocellular carcinoma.Molecular cancer · 2020Review
- Characterization of lncRNA LINC00520 and functional polymorphisms associated with breast cancer susceptibility in Chinese Han population.Cancer medicine · 2020Article
- Pan-tissue transcriptome analysis of long noncoding RNAs in the American beaver Castor canadensis.BMC genomics · 2020Article
- Long Noncoding RNA and Epithelial Mesenchymal Transition in Cancer.International journal of molecular sciences · 2019Review
- Conserved regions in long non-coding RNAs contain abundant translation and protein-RNA interaction signatures.NAR genomics and bioinformatics · 2019Article
- SSS-test: a novel test for detecting positive selection on RNA secondary structure.BMC bioinformatics · 2019Article
- Transcriptomic analyses reveal groups of co-expressed, syntenic lncRNAs in four species of the genus Caenorhabditis.RNA biology · 2019Article
- Long Non-Coding RNAs in the Regulation of Gene Expression: Physiology and Disease.Non-coding RNA · 2019Review
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Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundMetazoans transcribe many long non-coding RNAs (lncRNAs) that are poorly conserved and whose function remains unknown. This has raised the questions of what fraction of the predicted lncRNAs is actually functional, and whether selection can effectively constrain lncRNAs in species with small effective population sizes such as human populations.
resultsHere we evaluate signatures of selection in human lncRNAs using inter-specific data and intra-specific comparisons from five major populations, as well as by assessing relationships between sequence variation and predictions of secondary structure. In all analyses we included a reference of functionally characterized lncRNAs. Altogether, our results show compelling evidence of recent purifying selection acting on both characterized and predicted lncRNAs. We found that RNA secondary structure constrains sequence variation in lncRNAs, so that polymorphisms are depleted in paired regions with low accessibility and tend to be neutral with respect to structural stability.
conclusionsImportant implications of our results are that secondary structure plays a role in the functionality of lncRNAs, and that the set of predicted lncRNAs contains a large fraction of functional ones that may play key roles that remain to be discovered.
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