Angela M Yu
rna-lab.bsky.social
Angela M Yu
@rna-lab.bsky.social
Assistant professor at Baylor College of Medicine: Therapeutic Innovation Center and Department of Biochemistry and Molecular Pharmacology.
Tackling RNA regulation and structure with computation and experiments.
My views are my own.
Yesterday we discussed BindCraftEnergy at our Biomolecular AI journal club. Great job presenting, Bobby Tesoriero from the Ajo-Franklin group (Rice U)! arxiv.org/abs/2505.21241
BindEnergyCraft: Casting Protein Structure Predictors as Energy-Based Models for Binder Design
Protein binder design has been transformed by hallucination-based methods that optimize structure prediction confidence metrics, such as the interface predicted TM-score (ipTM), via backpropagation. H...
arxiv.org
July 12, 2025 at 7:51 PM
Another great Biomolecular AI journal club today, presented by my lab member Gabriel Fonseca! We discussed RhoDesign, a deep generative design tool for RNA aptamers.
doi.org/10.1038/s435...
Deep generative design of RNA aptamers using structural predictions - Nature Computational Science
A deep learning platform for structure-guided, generative design of RNA sequences is developed and used to discover fluorescent RNA aptamers.
doi.org
June 6, 2025 at 8:08 PM
At our latest Biomolecular AI journal club, Precious Castillo from @cjamesglasscock.bsky.social lab did a fantastic job presenting the NuFold paper! www.nature.com/articles/s41...
NuFold: end-to-end approach for RNA tertiary structure prediction with flexible nucleobase center representation - Nature Communications
The 3D structure of RNA is crucial for unraveling its functions. Here, the authors developed NuFold, an end-to-end deep learning-based approach that predicts all-atom RNA 3D structures from sequences....
www.nature.com
May 12, 2025 at 2:49 AM
Honored to be featured in the @rnasociety.bsky.social Member Spotlight series and share my experiences & views that led me to where I am today! Mentorship and sponsorship were pivotal in my career path. I am now at @bcmhouston.bsky.social and my lab is leveraging ML+AI for RNA regulation+structure.
A nice spotlight piece from the RNA Society (@rnasociety.bsky.social) on our new BCM (@bcmhouston.bsky.social) faculty member Angela Yu (@rna-lab.bsky.social) who is applying machine learning and AI to understand and modulate RNA structure/regulation. www.rnasociety.org/dr--angela-yu
Dr. Angela Yu
www.rnasociety.org
May 6, 2025 at 3:03 PM
Another fantastic Biomolecular AI Journal club presentation by graduate student Shrish Dwivedi from the @drjimmydale.bsky.social lab! We discussed the ESM2 paper:
www.science.org/doi/10.1126/...
Evolutionary-scale prediction of atomic-level protein structure with a language model
A protein language model enables structure prediction and analysis of more than 600 million metagenomic proteins.
www.science.org
April 19, 2025 at 2:15 PM
Reposted by Angela M Yu
Online Now: A nuclear RNA degradation code is recognized by PAXT for eukaryotic transcriptome surveillance Online now:
A nuclear RNA degradation code is recognized by PAXT for eukaryotic transcriptome surveillance
Soles et al. demonstrate that the combination of a 5′ splice site and a poly(A) junction constitutes a nuclear RNA degradation code that targets RNAs for degradation by the PAXT adaptor and the RNA exosome. This study provides fundamental insight into how the RNA exosome specifically recognizes misprocessed RNAs.
dlvr.it
April 10, 2025 at 11:32 AM
Reposted by Angela M Yu
A nuclear RNA degradation code is recognized by PAXT for eukaryotic transcriptome surveillance: Molecular Cell www.cell.com/molecular-ce...

#RNAsky #RNAbiology #RNAdecay
A nuclear RNA degradation code is recognized by PAXT for eukaryotic transcriptome surveillance
Soles et al. demonstrate that the combination of a 5′ splice site and a poly(A) junction constitutes a nuclear RNA degradation code that targets RNAs for degradation by the PAXT adaptor and the RNA ex...
www.cell.com
April 5, 2025 at 5:22 PM
Reposted by Angela M Yu
I'm excited to share our latest publication on co-transcriptional RNA folding in a eukaryote! Great work by Leo Schärfen with collaboration from Isaac Vock and Matt Simon! @leoschaerfen.bsky.social @mattdsimon.bsky.social
Here is the link that works! authors.elsevier.com/a/1kpxo_Oylr...
authors.elsevier.com
March 26, 2025 at 1:07 PM
Excellent Biomolecular Artificial Intelligence Journal Club presentation today by Matthew Lee from Caleb Bashor's lab! Please reach out if you are interested in joining the journal club and are in the Houston area.
March 14, 2025 at 9:08 PM
Reposted by Angela M Yu
NIH cuts are hitting young scientists the hardest. By David Baker. timmermanreport.com/2025/03/davi...
March 12, 2025 at 12:58 PM
Hello, RNA World! First day in my new office.
March 11, 2025 at 4:57 PM