Roles and mechanisms of alternative splicing in cancer—implications for care

SC Bonnal, I López-Oreja, J Valcárcel - Nature reviews Clinical …, 2020 - nature.com
Removal of introns from messenger RNA precursors (pre-mRNA splicing) is an essential
step for the expression of most eukaryotic genes. Alternative splicing enables the regulated …

Alternative mRNA splicing in cancer immunotherapy

L Frankiw, D Baltimore, G Li - Nature Reviews Immunology, 2019 - nature.com
Immunotherapies are yielding effective treatments for several previously untreatable
cancers. Still, the identification of suitable antigens specific to the tumour that can be targets …

Decoding disease: from genomes to networks to phenotypes

AK Wong, RSG Sealfon, CL Theesfeld… - Nature Reviews …, 2021 - nature.com
Interpreting the effects of genetic variants is key to understanding individual susceptibility to
disease and designing personalized therapeutic approaches. Modern experimental …

A review of deep learning applications in human genomics using next-generation sequencing data

WS Alharbi, M Rashid - Human Genomics, 2022 - Springer
Genomics is advancing towards data-driven science. Through the advent of high-throughput
data generating technologies in human genomics, we are overwhelmed with the heap of …

A multi-scale expression and regulation knowledge base for Escherichia coli

CR Lamoureux, KT Decker, AV Sastry… - Nucleic Acids …, 2023 - academic.oup.com
Transcriptomic data is accumulating rapidly; thus, scalable methods for extracting
knowledge from this data are critical. Here, we assembled a top-down expression and …

[PDF][PDF] Applications of deep learning in understanding gene regulation

Z Li, E Gao, J Zhou, W Han, X Xu, X Gao - Cell Reports Methods, 2023 - cell.com
Gene regulation is a central topic in cell biology. Advances in omics technologies and the
accumulation of omics data have provided better opportunities for gene regulation studies …

RNA dysregulation: an expanding source of cancer immunotherapy targets

Y Pan, KE Kadash-Edmondson, R Wang… - Trends in …, 2021 - cell.com
Cancer transcriptomes frequently exhibit RNA dysregulation. As the resulting aberrant
transcripts may be translated into cancer-specific proteins, there is growing interest in …

A comprehensive benchmarking of differential splicing tools for RNA-seq analysis at the event level

M Jiang, S Zhang, H Yin, Z Zhuo… - Briefings in …, 2023 - academic.oup.com
RNA alternative splicing, a post-transcriptional stage in eukaryotes, is crucial in cellular
homeostasis and disease processes. Due to the rapid development of the next-generation …

[HTML][HTML] AI applications in functional genomics

C Caudai, A Galizia, F Geraci, L Le Pera… - Computational and …, 2021 - Elsevier
We review the current applications of artificial intelligence (AI) in functional genomics. The
recent explosion of AI follows the remarkable achievements made possible by “deep …

Deep learning in omics data analysis and precision medicine

J Martorell-Marugán, S Tabik… - Exon …, 2019 - exonpublications.com
The rise of omics techniques has resulted in an explosion of molecular data in modern
biomedical research. Together with information from medical images and clinical data, the …