QAPA: a new method for the systematic analysis of alternative polyadenylation from RNA-seq data
Alternative polyadenylation (APA) affects most mammalian genes. The genome-wide
investigation of APA has been hampered by an inability to reliably profile it using …
investigation of APA has been hampered by an inability to reliably profile it using …
APAlyzer: a bioinformatics package for analysis of alternative polyadenylation isoforms
Most eukaryotic genes produce alternative polyadenylation (APA) isoforms. APA is
dynamically regulated under different growth and differentiation conditions. Here, we …
dynamically regulated under different growth and differentiation conditions. Here, we …
Benchmarking sequencing methods and tools that facilitate the study of alternative polyadenylation
Background Alternative cleavage and polyadenylation (APA), an RNA processing event,
occurs in over 70% of human protein-coding genes. APA results in mRNA transcripts with …
occurs in over 70% of human protein-coding genes. APA results in mRNA transcripts with …
Cell-type-specific analysis of alternative polyadenylation using single-cell transcriptomics data
ED Shulman, R Elkon - Nucleic acids research, 2019 - academic.oup.com
Alternative polyadenylation (APA) is emerging as an important layer of gene regulation
because the majority of mammalian protein-coding genes contain multiple polyadenylation …
because the majority of mammalian protein-coding genes contain multiple polyadenylation …
Alternative polyadenylation by sequential activation of distal and proximal PolyA sites
P Tang, Y Yang, G Li, L Huang, M Wen… - Nature structural & …, 2022 - nature.com
Analogous to alternative splicing, alternative polyadenylation (APA) has long been thought
to occur independently at proximal and distal polyA sites. Using fractionation-seq, we …
to occur independently at proximal and distal polyA sites. Using fractionation-seq, we …
Accurate transcriptome-wide identification and quantification of alternative polyadenylation from RNA-seq data with APAIQ
Alternative polyadenylation (APA) enables a gene to generate multiple transcripts with
different 3′ ends, which is dynamic across different cell types or conditions. Many …
different 3′ ends, which is dynamic across different cell types or conditions. Many …
APAtrap: identification and quantification of alternative polyadenylation sites from RNA-seq data
Motivation Alternative polyadenylation (APA) has been increasingly recognized as a crucial
mechanism that contributes to transcriptome diversity and gene expression regulation. As …
mechanism that contributes to transcriptome diversity and gene expression regulation. As …
APAatlas: decoding alternative polyadenylation across human tissues
Alternative polyadenylation (APA) is an RNA-processing mechanism on the 3′ terminus
that generates distinct isoforms of mRNAs and/or other RNA polymerase II transcripts with …
that generates distinct isoforms of mRNAs and/or other RNA polymerase II transcripts with …
Complex and dynamic landscape of RNA polyadenylation revealed by PAS-Seq
Alternative polyadenylation (APA) of mRNAs has emerged as an important mechanism for
post-transcriptional gene regulation in higher eukaryotes. Although microarrays have …
post-transcriptional gene regulation in higher eukaryotes. Although microarrays have …
Alternative polyadenylation: new insights from global analyses
Y Shi - Rna, 2012 - rnajournal.cshlp.org
Recent studies have revealed widespread mRNA alternative polyadenylation (APA) in
eukaryotes and its dynamic spatial and temporal regulation. APA not only generates …
eukaryotes and its dynamic spatial and temporal regulation. APA not only generates …