davidmcquarrie.bsky.social - Profile | ThreadSky | a Reddit-style client for Bluesky

In this paper, CRN Team @jacksonlab.bsky.social found that LINE-1 transposable elements contribute to the complexity of the transcriptome in human pluripotent stem cells by acting as alternative promoters for approximately 100 genes. Check out the full #preprint: shorturl.at/TJ9BK

submitted 1 day ago • 0 comments

Our new paper on the P-element invasion in D.simulans mobilednajournal.biomedcentral.com/articles/10....

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Up next at #AGBTGM: Athma Pai. Read more about the challenges in identifying mRNA transcript starts and ends from long-read sequencing data in @genomeresearch.bsky.social - tinyurl.com/Genome-Res-2...

submitted 2 days ago • 0 comments

pre-rRNA is cleaved into rRNA by a 500 kDa ribonucleoprotein, RNase MRP. Why is such a large complex needed for a simple cleavage ? We show how specific protein subunits distinguish RNase MRP from related enzymes and define its catalytic repertoar. www.biorxiv.org/content/10.1...

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The human ribosome modulates multidomain protein biogenesis by delaying cotranslational domain docking https://www.biorxiv.org/content/10.1101/2024.09.19.613857v1

submitted 160 days ago • 0 comments

RNA Transcripts Serve as a Template for Double-Strand Break Repair in Human Cells https://www.biorxiv.org/content/10.1101/2025.02.23.639725v1

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Paper is out! Great team effort led by Dominika Grzejda and Anton Heß @antonhess.bsky.social

submitted 4 days ago • 1 comment

Does the piRNA machinery evolve under greater adaptive evolution in species with more repeats? Using an approach we found helpful in answering such a question, and at least comparing D. melanogaster with D. ananassae and D. willistoni, it appears the opposite is true. doi.org/10.1093/g3jo...

submitted 6 days ago • 2 comments

Now online! Reprogrammable RNA-targeting CRISPR systems evolved from RNA toxin-antitoxins

submitted 9 days ago • 0 comments

THIS IS HUGE! Researchers at Memorial Sloan Kettering Cancer Center say results of a Phase I trial of an mRNA vaccine aimed at preventing pancreatic cancer show promise. The vaccine PREVENTED the cancer from coming back in patients who had already received treatment for MORE THAN three years. 🧪🧵⬇️

submitted 6 days ago • 349 comments

Continuous in situ synthesis of a complete set of tRNAs sustains steady-state translation in a recombinant cell-free system. doi.org/10.1101/2025...

submitted 7 days ago • 0 comments

"Can natural selection structure genetic and developmental systems to bias mutations toward adaptive outcomes?" 🦠💫 #microsky www.science.org/doi/10.1126/...

submitted 6 days ago • 1 comment

Internal cap-initiated translation for efficient protein production from circular mRNA - @nagoyauniversity.bsky.social go.nature.com/4b37Thj

submitted 8 days ago • 2 comments

@tbadet.bsky.social and I have a preprint out on transposon silencing in fungi! Genome size evolution is fascinating and showcases the dynamic nature of transposon activation. What we understand less are the dynamics of transposon defense systems encoded by the genomes. doi.org/10.1101/2025...

submitted 42 days ago • 4 comments

An RNA Splicing System that Excises Transposons from Animal mRNAs https://www.biorxiv.org/content/10.1101/2025.02.14.638102v1

submitted 9 days ago • 0 comments

Synonymous mutations promote tumorigenesis by disrupting m6A-dependent mRNA metabolism @cellcellpress.bsky.social www.cell.com/cell/fulltex...

submitted 14 days ago • 0 comments

Comprehensive dissection of cis-regulatory elements in a 2.8 Mb topologically associated domain in six human cancers www.nature.com/articles/s41...

submitted 11 days ago • 0 comments

Our latest work on targeting the poison exon in #RNA #splicing factor TRA2B in #cancer reveals a role for this non coding transcript and opportunities for targeting splicing factor levels across multiple tumor types rdcu.be/d90Ra #RNAsky @jacksonlab.bsky.social

submitted 11 days ago • 2 comments

This is a beautiful, important new paper that forges a link between mRNA epitranscriptomes, cancer variants, and response to therapy. This should be on everyone's reading list. #RNAsky #CANsky #genomics #bioinformatics #GENEsky 🧬 💻 🧪 www.cell.com/cell/fulltex...

submitted 13 days ago • 1 comment

oh, to be in your late 70s and still publishing first-author papers in @science.org ... steve henikoff is a legend!! www.science.org/doi/10.1126/...

submitted 13 days ago • 2 comments

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

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Check it out! Another novel RNA modification - ADP-ribosylation - that was previously only known on proteins. A cousin to #glycoRNA 👏 www.nature.com/articles/s41...

submitted 21 days ago • 3 comments

An envelope stress response governs long-chain fatty acid metabolism via a small RNA to maintain redox homeostasis in Escherichia coli 🦠 #microsky #rnasky from Chaba lab www.biorxiv.org/content/10.1...

submitted 21 days ago • 1 comment

Doing CRISPR: Check out our PlatinumCRISPr server update now including Cas12a sgRNA selection, thanks to @roliarnold.bsky.social

submitted 26 days ago • 1 comment

Fruitful collaboration between our team & Sven Jager/Ziv Bar Joseph's team @Sanofi published today @narjournal.bsky.social: a language model that learns the grammar of all regions of an mRNA from head to tail!! Can be fine-tuned on all of your favorite mRNA-related tasks -- a successor of CodonBERT.

submitted 24 days ago • 0 comments

Amazing stuff from @marvintanenbaum.bsky.social! Long-term imaging of individual ribosomes reveals ribosome cooperativity in mRNA translation: Cell www.cell.com/cell/fulltex... #RNAsky #RNABiology

submitted 26 days ago • 1 comment

NSUN6 inhibitor discovery guided by its mRNA substrate bound crystal structure doi.org/10.1016/j.st... #RNA #RNAsky #RNAbiology

submitted 30 days ago • 0 comments

Two great articles in Mol Cell about enhancer cooperativity & long-range enhancer activation by @chribue.bsky.social & Wysocka labs: www.sciencedirect.com/science/arti... www.sciencedirect.com/science/arti... Dimitra and I had the pleasure to write a Preview: www.sciencedirect.com/science/arti...

submitted 41 days ago • 0 comments

"YTHDF2 functions as a dual reader where it stabilizes mRNAs as a 5-methylcytosine (m5C) reader ..." doi.org/10.1016/j.ce... #RNA #RNAsky #RNAbiology

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CleanCap M6 inhibits decapping of exogenously delivered IVT mRNA: Molecular Therapy Nucleic Acids www.cell.com/molecular-th...

submitted 31 days ago • 0 comments

Exiting insights though mysteries of cap4 remain!

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Architecture and RNA binding properties of the trypanosome nuclear cap-binding complex - key complex in the parasite’s RNA metabolism. Final peer-reviewed version is public! #RNAsky #trypsky www.nature.com/articles/s41...

submitted 37 days ago • 0 comments

If anyone happens to need it this week for...reasons...this is the best graphic on the complexity of human sex determination I've ever seen. I use it in an undergrad course on gene regulatory mechanisms. Shoutout to @unamandita.bsky.social! www.scientificamerican.com/article/beyo...

submitted 37 days ago • 36 comments

Our paper on Alternative epigenetic states of Arabidopsis Transposable Elements is finally out in Genome Biology ! rdcu.be/d6Yly

submitted 36 days ago • 6 comments

An interesting link between 5mC and m6A; when #epigenetics meets #epitranscriptomics! www.cell.com/cell/abstrac...

submitted 39 days ago • 0 comments

A new paper from the Hoebartner Lab @UniWue @chlab.bsky.social reports the crystal structures of the ribozyme SAMURI, revealing the mechanism of its methyltransferase activity and site-selectivity www.nature.com/articles/s41...

submitted 44 days ago • 0 comments

Check out our recent work on CDS #m6A mediated RNA decay (CMD)! Decay relies on ribosome pausing at m6A containing codons. Great collab with the Zarnack lab & colleagues. Thank you @uniwuerzburg.bsky.social , @imbmainz.bsky.social and RMap🥳 www.cell.com/molecular-ce...

submitted 43 days ago • 0 comments

"YTHDF2 functions as a dual reader where it stabilizes mRNAs as a 5-methylcytosine (m5C) reader ..." doi.org/10.1016/j.ce... #RNA #RNAsky #RNAbiology

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#RNAsky #RNAbiology

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O-GlcNAcylation of YTHDF2 antagonizes ERK-dependent phosphorylation and inhibits lung carcinoma https://www.biorxiv.org/content/10.1101/2023.09.09.557012v1

submitted 535 days ago • 0 comments

Very proud of our first peer-reviewed paper from the lab: a review on the multifaceted role of RNA-binding proteins in the metabolic control of stem cells. Check it out! This is a truly amazing effort by my PhD student Ellie Koletsou @mpiage.bsky.social #proudPI doi.org/10.1038/s443...

submitted 44 days ago • 3 comments

Excited to share our new paper on molecular mechanism for circuit structural plasticity in the Drosophila adult brain. Congratulations @aliciahidalgolab.bsky.social and the amazing postdocs Dr. Jun Sun, Dr. Fran Rojo-Cortes & all contributing authors. doi.org/10.7554/eLif... doi.org/10.7554/eLif...

submitted 67 days ago • 1 comment

Very happy to start the new year with publication of our new work on leaf surface RNA. Plant leaves secrete diverse RNAs that are surprisingly stable on their surfaces. Next question to answer: What do they do? www.pnas.org/doi/epub/10....

submitted 55 days ago • 2 comments

Interesting! #MARTRE #CCR4 #NOT #PolyA #Tail #Polyadenylation #RNA #Translation www.nature.com/articles/s41...

submitted 46 days ago • 0 comments

This collaboration was such a pleasure. Our new paper on cascades of HT after introduction of two TEs to human commensals www.nature.com/articles/s41...

submitted 49 days ago • 2 comments

Out today in @naturegenet.bsky.social -- PERFF-seq! With @tsionabay.bsky.social , @ronanchaligne.bsky.social, Bob Stickels, Meril Takizawa, + Ansu Satpathy, we describe this new assay to study rare populations with programmable nucleic acid cytometry. 1/n www.nature.com/articles/s41...

submitted 50 days ago • 4 comments

www.nature.com/articles/s41...

submitted 48 days ago • 2 comments

RNA control of reverse transcription in a diversity-generating retroelement www.nature.com/articles/s41...

submitted 50 days ago • 2 comments