Rules and tools to predict the splicing effects of exonic and intronic mutations

K Ohno, J Takeda, A Masuda - Wiley Interdisciplinary Reviews …, 2018 - Wiley Online Library
Development of next generation sequencing technologies has enabled detection of
extensive arrays of germline and somatic single nucleotide variations (SNVs) in human …

In silico prediction of splice-altering single nucleotide variants in the human genome

X Jian, E Boerwinkle, X Liu - Nucleic acids research, 2014 - academic.oup.com
In silico tools have been developed to predict variants that may have an impact on pre-
mRNA splicing. The major limitation of the application of these tools to basic research and …

Circular RNA biogenesis can proceed through an exon-containing lariat precursor

SP Barrett, PL Wang, J Salzman - elife, 2015 - elifesciences.org
Pervasive expression of circular RNA is a recently discovered feature of eukaryotic gene
expression programs, yet its function remains largely unknown. The presumed biogenesis of …

Introduction to fission yeast as a model system

J Hayles, P Nurse - Cold Spring Harbor Protocols, 2018 - cshprotocols.cshlp.org
Introduction to Fission Yeast as a Model System Cold Spring Harbor Protocols Skip to main
page content HOME ABOUT SUBJECT CATEGORIES ARCHIVE SUBSCRIBE ADVERTISE …

Genome-wide discovery of human splicing branchpoints

TR Mercer, MB Clark, SB Andersen, ME Brunck… - Genome …, 2015 - genome.cshlp.org
During the splicing reaction, the 5′ intron end is joined to the branchpoint nucleotide,
selecting the next exon to incorporate into the mature RNA and forming an intron lariat …

Genome-wide detection of human variants that disrupt intronic branchpoints

P Zhang, Q Philippot, W Ren, WT Lei… - Proceedings of the …, 2022 - National Acad Sciences
Pre-messenger RNA splicing is initiated with the recognition of a single-nucleotide intronic
branchpoint (BP) within a BP motif by spliceosome elements. Forty-eight rare variants in 43 …

[HTML][HTML] Identification of prognostic immune-related genes in the tumor microenvironment of endometrial cancer

P Chen, Y Yang, Y Zhang, S Jiang, X Li… - Aging (Albany NY), 2020 - ncbi.nlm.nih.gov
Endometrial cancer (EC) is one of the most common gynecologic malignancies. To identify
potential prognostic biomarkers for EC, we analyzed the relationship between the EC tumor …

Inborn errors of RNA lariat metabolism in humans with brainstem viral infection

SY Zhang, NE Clark, CA Freije, E Pauwels, AJ Taggart… - Cell, 2018 - cell.com
Viruses that are typically benign sometimes invade the brainstem in otherwise healthy
children. We report bi-allelic DBR1 mutations in unrelated patients from different ethnicities …

Large-scale analysis of branchpoint usage across species and cell lines

AJ Taggart, CL Lin, B Shrestha, C Heintzelman… - Genome …, 2017 - genome.cshlp.org
The coding sequence of each human pre-mRNA is interrupted, on average, by 11 introns
that must be spliced out for proper gene expression. Each intron contains three obligate …

Long-read sequencing of nascent RNA reveals coupling among RNA processing events

L Herzel, K Straube, KM Neugebauer - Genome research, 2018 - genome.cshlp.org
Pre-mRNA splicing is accomplished by the spliceosome, a megadalton complex that
assembles de novo on each intron. Because spliceosome assembly and catalysis occur …