From computational models of the splicing code to regulatory mechanisms and therapeutic implications
Since the discovery of RNA splicing and its role in gene expression, researchers have
sought a set of rules, an algorithm or a computational model that could predict the splice …
sought a set of rules, an algorithm or a computational model that could predict the splice …
[HTML][HTML] mRNA vaccine sequence and structure design and optimization: Advances and challenges
L **, Y Zhou, S Zhang, SJ Chen - Journal of Biological Chemistry, 2024 - Elsevier
Messenger RNA (mRNA) vaccines have emerged as a powerful tool against communicable
diseases and cancers, as demonstrated by their huge success during the coronavirus …
diseases and cancers, as demonstrated by their huge success during the coronavirus …
gRNAde: Geometric Deep Learning for 3D RNA inverse design
Computational RNA design tasks are often posed as inverse problems, where sequences
are designed based on adopting a single desired secondary structure without considering …
are designed based on adopting a single desired secondary structure without considering …
Rna-frameflow for de novo 3d rna backbone design
We introduce RNA-FrameFlow, the first generative model for 3D RNA backbone design. We
build upon $ SE (3) $ flow matching for protein backbone generation and focus on …
build upon $ SE (3) $ flow matching for protein backbone generation and focus on …
Consistent features observed in structural probing data of eukaryotic RNAs
K Yamamura, K Asai, J Iwakiri - NAR Genomics and …, 2025 - academic.oup.com
Understanding RNA structure is crucial for elucidating its regulatory mechanisms. With the
recent commercialization of messenger RNA vaccines, the profound impact of RNA structure …
recent commercialization of messenger RNA vaccines, the profound impact of RNA structure …
RNA-FrameFlow: Flow Matching for de novo 3D RNA Backbone Design
We introduce RNA-FrameFlow, the first generative model for 3D RNA backbone design. We
build upon SE (3) flow matching for protein backbone generation and establish protocols for …
build upon SE (3) flow matching for protein backbone generation and establish protocols for …
[HTML][HTML] OpenASO: RNA Rescue—designing splice-modulating antisense oligonucleotides through community science
V Tse, M Guiterrez, J Townley, J Romano, J Pearl… - …, 2024 - pmc.ncbi.nlm.nih.gov
Splice-modulating antisense oligonucleotides (ASOs) are precision RNA-based drugs that
are becoming an established modality to treat human disease. Previously, we reported the …
are becoming an established modality to treat human disease. Previously, we reported the …
A generative framework for enhanced cell-type specificity in rationally designed mRNAs
mRNA delivery offers new opportunities for disease treatment by directing cells to produce
therapeutic proteins. However, designing highly stable mRNAs with programmable cell type …
therapeutic proteins. However, designing highly stable mRNAs with programmable cell type …