News & Publications

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RNA2020 Online: Award winning poster Link out

RNA2020 online conference

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Publications citing PolyASite

Ali, T. and Grote, P. Beyond the RNA-dependent function of LncRNA genes. elife (2020) Link out

Li, G. et al. SCAPTURE: a deep learning-embedded pipeline that captures polyadenylation information from 3'tag-based RNA-seq of single cells. bioRxiv (2021) Link out

Bai, Y. et al. Cell-type-specific alternative polyadenylation (APA) genes reveal the function of dynamic APA in complex tissues. bioRxiv (2020) Link out

Bai, Y. et al. Identifying genes with cell-type-specific alternative polyadenylation in multi-cluster single-cell transcriptomics data. bioRxiv (2020) Link out

Bhat, P. et al. Systematic refinement of gene annotations by parsing mRNA 3' end sequencing datasets. (2021) Link out

Mulroney, L. Identification of Full-Length Transcript Isoforms Using Nanopore Sequencing of Individual RNA Strands. (2020) Link out

Tian, B. MRNA 3'End Processing and Metabolism. (2021) Link out

Fiszbein, A. et al. Widespread occurrence of hybrid internal-terminal exons in human transcriptomes. bioRxiv (2021) Link out

Agarwal, V. et al. The landscape of alternative polyadenylation in single cells of the developing mouse embryo. bioRxiv (2021) Link out

Gerber, S. et al. Streamlining differential exon and 3' UTR usage with diffUTR. BMC bioinformatics (2021) Link out

Raguz, N. et al. JMJD6 regulates splicing of its own gene resulting in alternatively spliced isoforms with different nuclear targets. International journal of molecular sciences (2020) Link out

Jalihal, A. et al. Multivalent proteins rapidly and reversibly phase-separate upon osmotic cell volume change. Molecular cell (2020) Link out

Jin, W. et al. Animal-APAdb: a comprehensive animal alternative polyadenylation database. Nucleic Acids Research (2021) Link out

Joglekar, A. et al. Cell-type, single-cell, and spatial signatures of brain-region specific splicing in postnatal development. BioRxiv (2020) Link out

Joglekar, A. et al. A spatially resolved brain region-and cell type-specific isoform atlas of the postnatal mouse brain. Nature Communications (2021) Link out

Kandhari, N. et al. The Detection and Bioinformatic Analysis of Alternative 3' UTR Isoforms as Potential Cancer Biomarkers. International Journal of Molecular Sciences (2021) Link out

Marini, F. et al. TREND-DB a transcriptome-wide atlas of the dynamic landscape of alternative polyadenylation. Nucleic Acids Research (2021) Link out

Mitschka, S. et al. Generation of 3' UTR knockout cell lines by CRISPR/Cas9-mediated genome editing. (2021) Link out

Mulroney, L. et al. Identification of high confidence human poly (A) RNA isoform scaffolds using nanopore sequencing. bioRxiv (2020) Link out

Thijssen, M. et al. In Vitro Silencing of lncRNA Expression Using siRNAs. (2021) Link out

Pereira-Castro, I. and Moreira, A. On the function and relevance of alternative 3'-UTRs in gene expression regulation. Wiley Interdisciplinary Reviews: RNA (2021) Link out

Peros, I. et al. Advances in the Bioinformatics Knowledge of mRNA Polyadenylation in Baculovirus Genes. Viruses (2020) Link out

Pritts, J. et al. Understanding RNA Binding by the Nonclassical Zinc Finger Protein CPSF30, a Key Factor in Polyadenylation during Pre-mRNA Processing. Biochemistry (2021) Link out

Sena, R. et al. The RNA-Binding Protein HuD Regulates Alternative Splicing and Alternative Polyadenylation in the Mouse Neocortex. Molecules (2021) Link out

Sethi, S. et al. Leveraging omic features with F3UTER enables identification of unannotated 3'UTRs for synaptic genes. bioRxiv (2021) Link out

Shin, J. et al. Modulation of alternative cleavage and polyadenylation events by dCas9-mediated CRISPRpas. (2021) Link out

Swamy, V. et al. A long read optimized de novo transcriptome pipeline reveals novel ocular developmentally regulated gene isoforms and disease targets. bioRxiv (2020) Link out

Swamy, V. et al. A short-read de novo transcriptome construction pipeline optimized by long reads reveals novel developmentally regulated gene isoforms and disease targets in hundreds of eye samples. bioRxiv (2020) Link out

Lusk, R. et al. Aptardi predicts polyadenylation sites in sample-specific transcriptomes using high-throughput RNA sequencing and DNA sequence. Nature communications (2021) Link out

Luzzi, S. et al. RBMX enables productive RNA processing of ultra-long exons important for genome stability. bioRxiv (2020) Link out

Wilton, J. et al. Simultaneous studies of gene expression and alternative polyadenylation in primary human immune cells. (2021) Link out

Wu, X. et al. scAPAtrap: identification and quantification of alternative polyadenylation sites from single-cell RNA-seq data. Briefings in Bioinformatics (2020) Link out

Zhang, Y. et al. Alternative polyadenylation: methods, mechanism, function, and role in cancer. Journal of Experimental \& Clinical Cancer Research (2021) Link out