The role of alternative splicing in adaptation and evolution

Alternative splicing and gene expression play contrasting roles in the parallel phenotypic evolution of a salmonid fish

(2021) Arne Jacobs et al.   MOLECULAR ECOLOGY

Identification and analysis of splicing quantitative trait loci across multiple tissues in the human genome

(2021) Diego Garrido-Martín et al.   Nature Communications

Splicing-associated chromatin signatures: a combinatorial and position-dependent role for histone marks in splicing definition

(2021) E. Agirre et al.   Nature Communications

Splice site m6A methylation prevents binding of U2AF35 to inhibit RNA splicing

(2021) Mateusz Mendel et al.   CELL

Alternative splicing during mammalian organ development

(2021) Pavel V. Mazin et al.   NATURE GENETICS

Parallel and Population-specific Gene Regulatory Evolution in Cold-Adapted Fly Populations

(2021) Yuheng Huang et al.   GENETICS

Computational comparison of common event-based differential splicing tools: practical considerations for laboratory researchers

(2021) Ittai B. Muller et al.   BMC BIOINFORMATICS

Aberrant RNA splicing due to genetic incompatibilities in sunflower hybrids

(2021) Chris C R Smith et al.   EVOLUTION

Long-read RNA sequencing reveals widespread sex-specific alternative splicing in threespine stickleback fish

(2021) Alice S. Naftaly et al.   GENOME RESEARCH

Mutational sources of trans-regulatory variation affecting gene expression in Saccharomyces cerevisiae

(2021) Fabien Duveau et al.   eLife

Direct full-length RNA sequencing reveals unexpected transcriptome complexity during Caenorhabditis elegans development

(2020) Runsheng Li et al.   GENOME RESEARCH

Cis- and trans-regulations of pre-mRNA splicing by RNA editing enzymes influence cancer development

(2020) Sze Jing Tang et al.   Nature Communications

Ribosome profiling at isoform level reveals evolutionary conserved impacts of differential splicing on the proteome

(2020) Marina Reixachs-Solé et al.   Nature Communications

Full-length transcript characterization of SF3B1 mutation in chronic lymphocytic leukemia reveals downregulation of retained introns

(2020) Alison D. Tang et al.   Nature Communications

Alternative polyadenylation mediates genetic regulation of gene expression

(2020) Briana E Mittleman et al.   eLife

Sex-specific selection drives the evolution of alternative splicing in birds

(2020) Thea F Rogers et al.   MOLECULAR BIOLOGY AND EVOLUTION

Few fixed variants between trophic specialist pupfish species reveal candidate cis-regulatory alleles underlying rapid craniofacial divergence

(2020) Joseph A McGirr et al.   MOLECULAR BIOLOGY AND EVOLUTION

The GTEx Consortium atlas of genetic regulatory effects across human tissues

(2020)   SCIENCE

Cis-regulatory differences in isoform expression associate with life history strategy variation in Atlantic salmon

(2020) Jukka-Pekka Verta et al.   PLoS Genetics

Parallelism in gene expression between foothill and alpine ecotypes in Arabidopsis arenosa

(2020) Guillaume Wos et al.   PLANT JOURNAL

Simultaneous quantification of mRNA and protein in single cells reveals post-transcriptional effects of genetic variation

(2020) Christian Brion et al.   eLife

Anything but Ordinary – Emerging Splicing Mechanisms in Eukaryotic Gene Regulation

(2020) Niels H. Gehring et al.   TRENDS IN GENETICS

Trans Effects on Gene Expression Can Drive Omnigenic Inheritance

(2019) Xuanyao Liu et al.   CELL

Predominance of cis-regulatory changes in parallel expression divergence of sticklebacks

(2019) Jukka-Pekka Verta et al.   eLife

Single-Cell RNA-Seq Technologies and Related Computational Data Analysis

(2019) Geng Chen et al.   Frontiers in Genetics

DIFFUSE: predicting isoform functions from sequences and expression profiles via deep learning

(2019) Hao Chen et al.   BIOINFORMATICS

RNA sequencing: the teenage years

(2019) Rory Stark et al.   NATURE REVIEWS GENETICS

How to get away with nonsense: Mechanisms and consequences of escape from nonsense‐mediated RNA decay

(2019) Michael C. Dyle et al.   Wiley Interdisciplinary Reviews-RNA

Thermosensitive alternative splicing senses and mediates temperature adaptation in Drosophila

(2019) Ane Martin Anduaga et al.   eLife

Systematic evaluation of differential splicing tools for RNA-seq studies

(2019) Arfa Mehmood et al.   BRIEFINGS IN BIOINFORMATICS

Extensive Differential Splicing Underlies Phenotypically Plastic Aphid Morphs

(2018) Mary E Grantham et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genetics of alternative splicing evolution during sunflower domestication

(2018) Chris C. R. Smith et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Widespread intronic polyadenylation diversifies immune cell transcriptomes

(2018) Irtisha Singh et al.   Nature Communications

Genetics of trans-regulatory variation in gene expression

(2018) Frank Wolfgang Albert et al.   eLife

Widespread intronic polyadenylation inactivates tumour suppressor genes in leukaemia

(2018) Shih-Han Lee et al.   NATURE

The Role of Alternative Splicing and Differential Gene Expression in Cichlid Adaptive Radiation

(2017) Pooja Singh et al.   Genome Biology and Evolution

Co-expression networks reveal the tissue-specific regulation of transcription and splicing

(2017) Ashis Saha et al.   GENOME RESEARCH

Alternative splicing as a regulator of development and tissue identity

(2017) Francisco E. Baralle et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Alternative start and termination sites of transcription drive most transcript isoform differences across human tissues

(2017) Alejandro Reyes et al.   NUCLEIC ACIDS RESEARCH

Alternative Splicing May Not Be the Key to Proteome Complexity

(2017) Michael L. Tress et al.   TRENDS IN BIOCHEMICAL SCIENCES

Impact of Alternative Splicing on the Human Proteome

(2017) Yansheng Liu et al.   Cell Reports

Extensive alternative splicing transitions during postnatal skeletal muscle development are required for calcium handling functions

(2017) Amy E Brinegar et al.   eLife

The Evolutionary Relationship between Alternative Splicing and Gene Duplication

(2017) Luis P. Iñiguez et al.   Frontiers in Genetics

Widespread Expansion of Protein Interaction Capabilities by Alternative Splicing

(2016) Xinping Yang et al.   CELL

The Interplay of Temperature and Genotype on Patterns of Alternative Splicing in Drosophila melanogaster

(2016) Ana Marija Jakšić et al.   GENETICS

The role of isoforms in the evolution of cryptic coloration inPeromyscusmice

(2016) Ricardo Mallarino et al.   MOLECULAR ECOLOGY

Alternative polyadenylation of mRNA precursors

(2016) Bin Tian et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Mechanism and regulation of the nonsense-mediated decay pathway

(2016) Nele Hug et al.   NUCLEIC ACIDS RESEARCH

Alternative splicing and the evolution of phenotypic novelty

(2016) Stephen J. Bush et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

RNA splicing is a primary link between genetic variation and disease

(2016) Yang I. Li et al.   SCIENCE

The Interplay of Temperature and Genotype on Patterns of Alternative Splicing in Drosophila melanogaster

(2016) Ana Marija Jakšić et al.   GENETICS

Alternative Splice in Alternative Lice

(2015) Jaime M. Tovar-Corona et al.   MOLECULAR BIOLOGY AND EVOLUTION

SRSF1-Regulated Alternative Splicing in Breast Cancer

(2015) Olga Anczuków et al.   MOLECULAR CELL

Ten years of transcriptomics in wild populations: what have we learned about their ecology and evolution?

(2015) Mariano Alvarez et al.   MOLECULAR ECOLOGY

RNA mis-splicing in disease

(2015) Marina M. Scotti et al.   NATURE REVIEWS GENETICS

Nonsense-mediated mRNA decay: an intricate machinery that shapes transcriptomes

(2015) Søren Lykke-Andersen et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Aberrant RNA splicing in cancer; expression changes and driver mutations of splicing factor genes

(2015) A Sveen et al.   ONCOGENE

Widespread intron retention in mammals functionally tunes transcriptomes

(2014) Ulrich Braunschweig et al.   GENOME RESEARCH

Correcting for Differential Transcript Coverage Reveals a Strong Relationship between Alternative Splicing and Organism Complexity

(2014) Lu Chen et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genetics of single-cell protein abundance variation in large yeast populations

(2014) Frank W. Albert et al.   NATURE

Context-dependent control of alternative splicing by RNA-binding proteins

(2014) Xiang-Dong Fu et al.   NATURE REVIEWS GENETICS

Impact of regulatory variation from RNA to protein

(2014) A. Battle et al.   SCIENCE

Exon identity crisis: disease-causing mutations that disrupt the splicing code

(2014) Timothy Sterne-Weiler et al.   GENOME BIOLOGY

Drift and conservation of differential exon usage across tissues in primate species

(2013) A. Reyes et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Intron-mediated alternative splicing of Arabidopsis P5CS1 and its association with natural variation in proline and climate adaptation

(2012) R. Kesari et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Evolutionary Dynamics of Gene and Isoform Regulation in Mammalian Tissues

(2012) J. Merkin et al.   SCIENCE

The Evolutionary Landscape of Alternative Splicing in Vertebrate Species

(2012) N. L. Barbosa-Morais et al.   SCIENCE

Functional consequences of developmentally regulated alternative splicing

(2011) Auinash Kalsotra et al.   NATURE REVIEWS GENETICS

Genome-wide analysis of alternative splicing evolution amongMussubspecies

(2010) BETTINA HARR et al.   MOLECULAR ECOLOGY

The Honey Bee Epigenomes: Differential Methylation of Brain DNA in Queens and Workers

(2010) Frank Lyko et al.   PLOS BIOLOGY

Nucleosome positioning as a determinant of exon recognition

(2009) Hagen Tilgner et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY