New paper alert 🚀 Our organism-wide single-cell ATAC-seq atlas of mammalian aging is now out in @science.org, led by our fantastic graduate student Ziyu Lu from @rockefeller.edu! www.science.org/doi/10.1126/...

Excited to share our new preprint showing cGAS mediates innate immune activity in TDP-43 proteinopathy. Pharmacological inhibition of cGAS restores microglial function, corrects RNA mis-splicing, & protects motor neurons across human iPSC & mouse models of ALS www.biorxiv.org/content/10.6...

Excited to share our work with @markrcookson.bsky.social and Payel Sen labs. We combine #SingleCell and #Nanopore sequencing to profile #RNA isoforms from young to geriatric mouse brains. We uncover #aging changes in transcription, processing, and splicing that also impact coding potential. #RNAsky

Neuronal aging leads to widespread dysregulation of RNA biology, including mislocalization of splicing proteins like TDP-43, chronic cellular stress, and reduced resiliency @kevinrhine.bsky.social www.nature.com/articles/s41...

🚨 We’re looking for a curious mind to join our lab at the NIH! Passionate about #RNA biology, #MachineLearning, and the #genomics of #aging? Interested in a postdoc or a PhD research visit at NIH? Let’s connect. 📩 DM or email for details! #Bioinformatics #AI #ComputationalBiology

A programmable RNA acetylation system using dCas13-eNAT10 is developed to install N4-acetylcytidine on target RNAs in cells and in vivo, enabling functional studies of RNA acetylation and revealing the unique role of RNA acetylation in transcript localization www.nature.com/articles/s41...

The timeline of co-transcriptional #mRNA processing and #modification may have to be revised: cleavage, termination, and #m6A deposition may occur earlier than most #splicing! Potential textbook changing study in bioRxiv by edueyras.bsky.social & Rippei Hayashi labs! www.biorxiv.org/content/10.1...

I've built an #RNA feed for personal use to capture RNA biology posts across the entire network. Some arbitrary filters used to hopefully increase signal to noise ratio but otherwise not moderated. Feel free to follow if you find useful.

Online Now: A nuclear RNA degradation code is recognized by PAXT for eukaryotic transcriptome surveillance Online now:

An interesting perspective and framework: #RNA condensates-not individual RNAs-may have acted as replicative units in early life. RNAs in condensate recruit similar RNAs, then the condensate divides once it reaches a critical size. #RNAsky

Wonderful collaboration with Payel Sen's group. Spatial transcriptomics reveal #inflammation origins in the white matter of the #aging mouse #brain

New review from the lab looking at high throughput methods of identifying ribosome heterogeneity. Great work from @ferhatalkan.bsky.social, Edwin Kyei-Baffour, and Qi Chang Lin! royalsocietypublishing.org/doi/10.1098/...

Latest work from our next door neighbors! #RNAsky #RNAbiology

Here's Twitter's descent since 2022

Our paper out in eLife. Full-length direct RNA #nanopore sequencing uncovers 5' #RNA shortening upon cellular #stress that depends on ✅ stress-granules and #XRN1 but ❌ not poly(A) or cap removal elifesciences.org/articles/96284 🤔 useful to further reduce translational load during #ISR? #RNAbiology

If you want to hear me rant about #RNA, #stress, #aging, #senescence come join me at the RNA collaborative seminar tomorrow Wed 4pm (EST) #RNAsociety #RNAsky #RNAbiology

circRNAs as tools for gene silencing, similar to microRNA-mediated gene silencing. Do we also need circRNA target prediction software? Circular RNAs trigger nonsense-mediated mRNA decay: Molecular Cell

SERVICE UPDATE We normally don't ask you to "share like and subscribe" but please distribute this. You are now able to delete the link after it embeds on your post so you can get those precious extra characters, and we will catch your post mentioning research. #AcademicSky #Medsky #HigherEd

Our latest work is out in Nature today! Using smFRET, we directly visualized recruitment of the eIF4F complex to the 5' cap of eukaryotic mRNAs and formation of an activated mRNA. Our findings reveal new and surprising roles for each eIF4F component. 1/3 www.nature.com/articles/s41...

Not looking to start a debate on #nextflow vs. #snakemake, but curious about their ease of adoption in a typical lab setting with ~4-year PhD/postdoc turnover. How do you feel newcomers adapt to each? Would you recommend one for easier onboarding? Feedback appreciated! #genomics #bioinformatics

How can physics define universal laws for computation, from cells and chips to brains? In this @pnas.org Perspective, led by @sfiscience.bsky.social David Wolpert and Jan Korbel, they suggest how Stochastic Thermodynamics can provide the proper framework pnas.org/doi/epub/10....

🎄🧪 Racing to submit your manuscript before the holidays? Check out our ShinyApp for editorial insights on publishers & journals—submission-to-acceptance times and more! Based on data from: doi.org/10.1162/qss_... Check the app here 👉 pagoba.shinyapps.io/strain_explo... #AcademicSky #Science

G3BP1 promotes intermolecular RNA-RNA interactions during #RNA condensation #RNAsky www.cell.com/molecular-ce...

A chimeric peptide promotes immune surveillance of senescent cells in injury, fibrosis, tumorigenesis and aging www.nature.com/articles/s43...

Tracking transcription–translation coupling in real time doi.org/10.1038/s415...

#RNAsky #RNAbiology

Cool new work from Jenn Prescher and coworkers @ucirvine.bsky.social, “RNA lantern” technology for bioluminescence imaging of RNA transcripts www.nature.com/articles/s41...

A panoramic view of cell population dynamics in mammalian aging www.science.org/doi/10.1126/...

Tips for scientist that are joining bsky. Super helpful to fill out your profile *before* you follow anyone. Listing interests and what you do helps a lot. At least one post, also helps to set the tone. Then starter packs will help you find accounts. Also ask to be added when within your expertise.

img: Sci-Illustrate.com. Dichotomy of stress response in senescent and cycling cells. Low #ribosome content in #senescence (right) reduces upstream ORF bypass (gold line) on ATF4 #RNA, despite high eIF2α-P (green). ➡️ Prevents #ISR activation and remodels the secretome (red). #aging #cancer #GeroSky

I hope you'll find this helpful in building our community around #CancerandAging go.bsky.app/AfLLSfN

Mitochondrial fatty acid oxidation drives senescence www.science.org/doi/10.1126/...

Very nice work!

Updated Aging Starter Pack!! People and labs interested in aging 😀 Let me know if you'd like to be added! go.bsky.app/5UXXaDA

🚨 Update for #RNA science fans: I checked on #Bsky registry, and here is a 'condensate' (😆) of all #RNA #RNAsky starter packs so far: 1. General RNA biology #1 go.bsky.app/RN6HnZp

Among so many amazing starter packs, but none focused on RNA splicing - so we made one! Check out the accounts we’ve included so far, and let us know if you’d like to be added or have suggestions! go.bsky.app/TigRnmC #rnasplicing

Biomolecular condensate starter pack! Trying to compile & to bring together biomolecular condensate enthusiasts & critics! Please join this non-exhaustive (sorry!) collection & just ping me for addition. #condensates, #phaseseparation, #granules, #IDPs go.bsky.app/NFqmffa

m6A sites in the coding region trigger translation-dependent mRNA decay: Molecular Cell www.cell.com/molecular-ce...

I wrote about the National Institutes of Health and the various serious and unserious proposals for NIH reform that have been floating around. It is important to understand how this agency actually functions and point criticism at the right problems. A short 🧵:

releasing a new Comp Bio + AI + ML starter pack 🧬 🖥️ 🧑🏾‍🔬 #compbio #AI #ML #singlecell #Bio #computational #biologie #bioinformatics go.bsky.app/Gia7iMf

Here’s the updated Computational Biology Starter Pack! Let me know if you'd like to be included. go.bsky.app/QVPoZXp

Arise, UPR & ISR scientists ! I will have missed many, so please tag below go.bsky.app/8VzRKLW

RNAkinet identifies nascent RNA by predicting 5EU metabolically labeled #RNA from raw #nanopore electrical signal. Should allow association of RNA metabolism dynamics with isoform usage, poly(A) tails and native RNA mods. academic.oup.com/nargab/artic...

How long does an mRNA stay in the nucleus? How long does it stay in the cytoplasm? In an amazing collaboration with @landthalerm.bsky.social, we used metabolic labeling, cell fractionation and mathematical modeling to quantify mRNA flow through the cell. Finally out in MSB: doi.org/10.1038/s443...

Excited our work featured in latest Molecular Cell issue. Q: How do senescent cells respond to stress? A: #Senescence suppresses the ISR by inhibited uORF bypass on ATF4 #RNA due to #ribosome reduction. This activates a remodeled secretory phenotype. www.cell.com/molecular-ce...