ArticleBMC genomics2013
Distinct polyadenylation landscapes of diverse human tissues revealed by a modified PA-seq strategy.
Article in BMC genomics, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.
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Who cites it
31 citing papers in PubMed.
- Pathogenic role of B-cell receptor signaling and canonical NF-κB activation in mantle cell lymphoma.Blood · 2016Trial
- Pathogen Effector-Mediated Reprogramming of Plant Alternative Splicing: From Immune Regulation to Crop Disease Resistance.Plants (Basel, Switzerland) · 2026Review
- Benchmarking of methods that identify alternative polyadenylation events in single-/multiple-polyadenylation site genes.NAR genomics and bioinformatics · 2025Review
- Quantifying negative selection in human 3' UTRs uncovers constrained targets of RNA-binding proteins.Nature communications · 2024Article
- Alternative polyadenylation regulation in cardiac development and cardiovascular disease.Cardiovascular research · 2023Review
- An Evolutionarily Conserved AU-Rich Element in the 3' Untranslated Region of a Transcript Misannotated as a Long Noncoding RNA Regulates RNA Stability.Molecular and cellular biology · 2022Article
- Cancer-associated dynamics and potential regulators of intronic polyadenylation revealed by IPAFinder using standard RNA-seq data.Genome research · 2021Article
- Dynamic Variations of 3'UTR Length Reprogram the mRNA Regulatory Landscape.Biomedicines · 2021Review
- Comprehensive characterization of somatic variants associated with intronic polyadenylation in human cancers.Nucleic acids research · 2021Article
- Systematic evaluation of the effect of polyadenylation signal variants on the expression of disease-associated genes.Genome research · 2021Article
- PlantAPAdb: A Comprehensive Database for Alternative Polyadenylation Sites in Plants.Plant physiology · 2020Article
- Template-switching artifacts resemble alternative polyadenylation.BMC genomics · 2019Article
- Alternative polyadenylation dependent function of splicing factor SRSF3 contributes to cellular senescence.Aging · 2019Article
- A Genome-Wide Epstein-Barr Virus Polyadenylation Map and Its Antisense RNA to EBNA.Journal of virology · 2019Article
- Using Pan RNA-Seq Analysis to Reveal the Ubiquitous Existence of 5' and 3' End Small RNAs.Frontiers in genetics · 2019Article
- Genetic interaction effects reveal lipid-metabolic and inflammatory pathways underlying common metabolic disease risks.BMC medical genomics · 2018Article
- Antisense transcription regulates the expression of sense gene via alternative polyadenylation.Protein & cell · 2018Article
- High-throughput identification of RNA nuclear enrichment sequences.The EMBO journal · 2018Article
- Alternative start and termination sites of transcription drive most transcript isoform differences across human tissues.Nucleic acids research · 2018Article
- Alternative Polyadenylation: Methods, Findings, and Impacts.Genomics, proteomics & bioinformatics · 2017Review
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Authors and funding
9 authors.
Funding
Abstract
backgroundPolyadenylation is a key regulatory step in eukaryotic gene expression and one of the major contributors of transcriptome diversity. Aberrant polyadenylation often associates with expression defects and leads to human diseases.
resultsTo better understand global polyadenylation regulation, we have developed a polyadenylation sequencing (PA-seq) approach. By profiling polyadenylation events in 13 human tissues, we found that alternative cleavage and polyadenylation (APA) is prevalent in both protein-coding and noncoding genes. In addition, APA usage, similar to gene expression profiling, exhibits tissue-specific signatures and is sufficient for determining tissue origin. A 3' untranslated region shortening index (USI) was further developed for genes with tandem APA sites. Strikingly, the results showed that different tissues exhibit distinct patterns of shortening and/or lengthening of 3' untranslated regions, suggesting the intimate involvement of APA in establishing tissue or cell identity.
conclusionsThis study provides a comprehensive resource to uncover regulated polyadenylation events in human tissues and to characterize the underlying regulatory mechanism.
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