AIMC Topic: Alternative Splicing
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ASVirus: A Comprehensive Knowledgebase for the Viral Alternative Splicing.
Journal of chemical information and modeling
Mar 10, 2025
Viruses are significant human pathogens responsible for pandemic outbreaks and seasonal epidemics. Viral infectious diseases impose a devastating global burden and have a profound impact on public health systems. During viral infections, alternative ...
MCTASmRNA: A deep learning framework for alternative splicing events classification.
International journal of biological macromolecules
Jan 20, 2025
Alternative splicing (AS) plays crucial post-transcriptional gene function regulation roles in eukaryotic. Despite progress in studying AS at the RNA level, existing methods for AS event identification face challenges such as inefficiency, lengthy pr...
AGML: Adaptive Graph-Based Multi-Label Learning for Prediction of RBP and as Event Associations During EMT.
IEEE/ACM transactions on computational biology and bioinformatics
Dec 10, 2024
Increasing evidence has indicated that RNA-binding proteins (RBPs) play an essential role in mediating alternative splicing (AS) events during epithelial-mesenchymal transition (EMT). However, due to the substantial cost and complexity of biological ...
Predicting splicing patterns from the transcription factor binding sites in the promoter with deep learning.
BMC genomics
Sep 3, 2024
BACKGROUND: Alternative splicing is a pivotal mechanism of post-transcriptional modification that contributes to the transcriptome plasticity and proteome diversity in metazoan cells. Although many splicing regulations around the exon/intron regions ...
Development and validation of AI/ML derived splice-switching oligonucleotides.
Molecular systems biology
Apr 25, 2024
Splice-switching oligonucleotides (SSOs) are antisense compounds that act directly on pre-mRNA to modulate alternative splicing (AS). This study demonstrates the value that artificial intelligence/machine learning (AI/ML) provides for the identificat...
Deep learning structural insights into heterotrimeric alternatively spliced P2X7 receptors.
Purinergic signalling
Nov 30, 2023
P2X7 receptors (P2X7Rs) are membrane-bound ATP-gated ion channels that are composed of three subunits. Different subunit structures may be expressed due to alternative splicing of the P2RX7 gene, altering the receptor's function when combined with th...
DeepIII: Predicting Isoform-Isoform Interactions by Deep Neural Networks and Data Fusion.
IEEE/ACM transactions on computational biology and bioinformatics
Aug 8, 2022
Alternative splicing enables a gene translating into different isoforms and into the corresponding proteoforms, which actually accomplish various biological functions of a living body. Isoform-isoform interactions (IIIs) provide a higher resolution i...
DeepIDA: Predicting Isoform-Disease Associations by Data Fusion and Deep Neural Networks.
IEEE/ACM transactions on computational biology and bioinformatics
Aug 8, 2022
Alternative splicing produces different isoforms from the same gene locus, it is an important mechanism for regulating gene expression and proteome diversity. Although the prediction of gene(ncRNA)-disease associations has been extensively studied, f...
Using machine learning to detect the differential usage of novel gene isoforms.
BMC bioinformatics
Jan 18, 2022
BACKGROUND: Differential isoform usage is an important driver of inter-individual phenotypic diversity and is linked to various diseases and traits. However, accurately detecting the differential usage of different gene transcripts between groups can...
PIC-Me: paralogs and isoforms classifier based on machine-learning approaches.
BMC bioinformatics
Oct 21, 2021
BACKGROUND: Paralogs formed through gene duplication and isoforms formed through alternative splicing have been important processes for increasing protein diversity and maintaining cellular homeostasis. Despite their recognized importance and the adv...
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