ArticleInternational journal of molecular sciences2019
A Computational Analysis of Alternative Splicing across Mammalian Tissues Reveals Circadian and Ultradian Rhythms in Splicing Events.
Article in International journal of molecular sciences, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed, 32 citations in OpenAlex.
- The Baboon as a Model to Study Human Health and Complex Disease.American journal of primatology · 2026Review
- An Autonomous Clock that Controls Genetic Information Flow and Cellular Proteostasis.Advances in experimental medicine and biology · 2026Review
- Comprehensive integrative analysis of circadian rhythms in human saliva.Npj biological timing and sleep · 2025Article
- Twelve-hour ultradian rhythmic reprogramming of gene expression in the human ovary during aging.Journal of assisted reproduction and genetics · 2025Article
- CIRCUST: A novel methodology for temporal order reconstruction of molecular rhythms; validation and application towards a daily rhythm gene expression atlas in humans.PLoS computational biology · 2023Article
- Genetic pathways regulating the longitudinal acquisition of cocaine self-administration in a panel of inbred and recombinant inbred mice.Cell reports · 2023Article
- An integrative mathematical model for timing treatment toxicity and Zeitgeber impact in colorectal cancer cells.NPJ systems biology and applications · 2023Article
- Preservation of ∼12-hour ultradian rhythms of gene expression of mRNA and protein metabolism in the absence of canonical circadian clock.bioRxiv : the preprint server for biology · 2023Article
- Molecular characterization of the circadian clock in paediatric leukaemia patients: a prospective study protocol.BMC pediatrics · 2023Article
- Preservation of ∼12-h ultradian rhythms of gene expression of mRNA and protein metabolism in the absence of canonical circadian clock.Frontiers in physiology · 2023Article
- Comprehensive analysis of the circadian nuclear and cytoplasmic transcriptome in mouse liver.PLoS genetics · 2022Article
- Transcriptome analysis of clock disrupted cancer cells reveals differential alternative splicing of cancer hallmarks genes.NPJ systems biology and applications · 2022Article
- It's About Time: The Circadian Network as Time-Keeper for Cognitive Functioning, Locomotor Activity and Mental Health.Frontiers in physiology · 2022Review
- Article
- Molecular link between circadian clocks and cardiac function: a network of core clock, slave clock, and effectors.Current opinion in pharmacology · 2021Review
- A mathematical model of the circadian clock and drug pharmacology to optimize irinotecan administration timing in colorectal cancer.Computational and structural biotechnology journal · 2021Article
- Intrinsic disorder is an essential characteristic of components in the conserved circadian circuit.Cell communication and signaling : CCS · 2020Review
- An Optimal Time for Treatment-Predicting Circadian Time by Machine Learning and Mathematical Modelling.Cancers · 2020Review
- Article
- Human Periapical Cyst-Derived Stem Cells Can Be A Smart "Lab-on-A-Cell" to Investigate Neurodegenerative Diseases and the Related Alteration of the Exosomes' Content.Brain sciences · 2019Article
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
Abstract
Mounting evidence points to a role of the circadian clock in the temporal regulation of post-transcriptional processes in mammals, including alternative splicing (AS). In this study, we carried out a computational analysis of circadian and ultradian rhythms on the transcriptome level to characterise the landscape of rhythmic AS events in published datasets covering 76 tissues from mouse and olive baboon. Splicing-related genes with 24-h rhythmic expression patterns showed a bimodal distribution of peak phases across tissues and species, indicating that they might be controlled by the circadian clock. On the output level, we identified putative oscillating AS events in murine microarray data and pairs of differentially rhythmic splice isoforms of the same gene in baboon RNA-seq data that peaked at opposing times of the day and included oncogenes and tumour suppressors. We further explored these findings using a new circadian RNA-seq dataset of human colorectal cancer cell lines. Rhythmic isoform expression patterns differed between the primary tumour and the metastatic cell line and were associated with cancer-related biological processes, indicating a functional role of rhythmic AS that might be implicated in tumour progression. Our data shows that rhythmic AS events are widespread across mammalian tissues and might contribute to a temporal diversification of the proteome.
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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.