Proposal: preprints should not be double-spaced. I often want to print an interesting preprint, only to discover it's 40+ pages because of double spacing. Margins already provide plenty of room for notes. @biorxivpreprint.bsky.social

An elegant study deciphering the RNA localization code in neurons! congrats Matt!

Matthew Taliaferro@jmtali.bsky.social · 4mo ago

New paper! How do RNAs "know" where to go inside a cell? We dug into the sequence elements that route RNAs to the right place. It turns out that, in mammals, they're surprisingly massive (>200 nt), multipartite, and wonderfully complicated. 🧵

Finally out in @Cellcellpress! Proteins with long IDRs are prone to misfolding during protein synthesis. This is prevented by mRNA 3′UTRs that act as mRNA-based IDR chaperones. www.cell.com/cell/fulltex...

mRNA 3′ UTRs chaperone intrinsically disordered regions to control protein activity

Highly conserved mRNA 3′ UTRs act as co-translational chaperones for intrinsically disordered regions (IDRs), preventing inter-domain misfolding and enabling biogenesis of fully active proteins.

cell.com

Major new work by the #TransCODE Consortium out today in @nature.com. Read all about our efforts to shed light onto the forgotten areas of the human proteome. #Microproteins #Peptideins #DarkProteome This was a huge global collaboration, in part funded via #NIH www.nature.com/articles/s41... 1/

Expanding the human proteome with microproteins and peptideins - Nature

A large-scale proteomics analysis of the dark proteome by the TransCODE Consortium reveals many translated non-canonical open reading frames to encode microproteins and peptideins.

nature.com

Our work on the E3 ligase mechanism of target-directed microRNA degradation is now published! Amazing collaboration with Brenda Schulman’s lab led by @jakobfarnung.bsky.social and @elenaslo.bsky.social, with special thanks to @wyppeter.bsky.social, Lianne Blodgett, and Daniel Lin! tinyurl.com/Z8TDMD

The E3 ubiquitin ligase mechanism specifying targeted microRNA degradation - Nature

Target-directed microRNA degradation is driven by the atypical ZSWIM8–CUL3 E3 ubiquitin ligase that uses a two-RNA-factor authentication mechanism to specifically recognize AGO–miRNA–trigger...

tinyurl.com

David Bartel's Lab@bartellab.bsky.social · 9mo ago

We are thrilled to share our latest work uncovering the mechanistic basis of target-directed microRNA degradation (TDMD). This work was driven by @jakobfarnung.bsky.social and @elenaslo.bsky.social in a fantastic collaboration with Brenda Schulman's lab. tinyurl.com/E3TDMD (1/5)

I'm very excited to announce my official appointment as Chair of the Department of Systems Biology at Columbia @columbiauniversity.bsky.social @columbiamed.bsky.social @columbiasysbio.bsky.social. Looking forward to more SysBio growth in NY! systemsbiology.columbia.edu

First preprint of the year! New work from @jimmy-ly.bsky.social revealing unexpected roles for 5' UTR length in controlling alternate translational isoforms - important implications for both physiological cell function and rare disease. Small changes -> big impacts. www.biorxiv.org/content/10.6...

We’re excited to share our latest preprint on the mechanism of excised linear intron stabilization in yeast! This work was led by PhD student @glennli.bsky.social and was a wonderful collaboration with @maxewilkinson.bsky.social. Link: www.biorxiv.org/content/10.6... (1/4)

Why do I believe noncoding DNA carry more genetic information than coding DNA in the human genome? One argument beyond our MYC data: >70% of the conserved DNA are noncoding. While a lack of conservation does not mean lack of function, the presence of conservation often indicates function.

Does the noncoding genome actually carry more genetic information than coding seqs? Motivated by this question we mutated every bp in the 10kb MYC locus. Results are even more exciting: Decoding the MYC locus reveals a druggable ultraconserved RNA element www.biorxiv.org/content/10.6...

#ScienCV useful tips below. also you can drag to re-order Products list

Dr Kathleen Millen@neurodevkathy.bsky.social · 9mo ago

Reminder for those applying for #NIH grants using the #ScienCV templates. You can format the text sections using html codes: <p> paragraph <br> break line <b>bold</b> <i>italics</i>

Research Briefing featuring our work @natcardiovascres.nature.com : Hotspot RPL3L variants drive early onset heart failure through a dual mechanism www.nature.com/articles/s44...

Xuebing Wu@xuebingwu.bsky.social · 9mo ago

Excited to publish our work on how mutations in the muscle-specific ribosomal protein RPL3L drive severe heart disease. This is Part I of a larger body of work led by Michael - stay tuned for Part II on how specialized ribosomes function in normal physiology www.nature.com/articles/s44...

Excited to publish our work on how mutations in the muscle-specific ribosomal protein RPL3L drive severe heart disease. This is Part I of a larger body of work led by Michael - stay tuned for Part II on how specialized ribosomes function in normal physiology www.nature.com/articles/s44...

Michael Murphy@mmurphyrna.bsky.social · 9mo ago

Thrilled to share our research on how mutations in the muscle-specific ribosomal protein RPL3L, a paralog of RPL3, cause a rare infant heart disease. Hotspot mutations are both proteotoxic and induce unproductive splicing in RPL3 mRNA, preventing phenotypic rescue. rdcu.be/eYkC7

We are thrilled to share our latest work uncovering the mechanistic basis of target-directed microRNA degradation (TDMD). This work was driven by @jakobfarnung.bsky.social and @elenaslo.bsky.social in a fantastic collaboration with Brenda Schulman's lab. tinyurl.com/E3TDMD (1/5)

📢 Our Dept. of Systems Biology at Columbia University has an open tenure-track Assistant Professor position in the broad area of quantitative biology. Come join our awesome department in NYC! Please circulate. apply.interfolio.com/177622 Suggested deadline: 12/15/2025. @columbiasysbio.bsky.social

Check out the latest study from our lab, led by @mhall98.bsky.social : www.biorxiv.org/content/10.1... (1/2)

It’s been a tough few weeks. My 10yo daughter was diagnosed with a very rare, aggressive cancer called interdigitating dendritic cell sarcoma (IDCS). I’m reaching out to identify clinicians/patients who have encountered pediatric IDCS or other (non-LCH) dendritic or histiocytic sarcomas cases.

very interesting work on ribosome cooperativity

Marvin Tanenbaum@marvintanenbaum.bsky.social · 2y ago

Our paper on Stopless-ORF Circular RNAs (socRNAs) is now out in Cell. By high-res tracking and comparing translation by either single or multiple ribosomes, we find that ribosomes cooperate to overcome pausing to ensure fast and efficient translation www.cell.com/cell/fulltex...

Glad to be in the "conversation" about microproteins and other non-canonical proteins arising from noncoding translation. I look forward to continuing the discussion at the upcoming keystone symposium on microproteins

Nature@nature.com · 2y ago

“The leaders of the Human Genome Project always knew they were just starting a conversation” The human genome encodes potentially thousands of tiny proteins that were previously overlooked. The search is on to find out what they do https://go.nature.com/3CupmSS

congratulations! @nadavahituv.bsky.social and @vagar.bsky.social

Nadav Ahituv@nadavahituv.bsky.social · 2y ago

Massively parallel reporter assays (MPRAs) testing >680,000 sequences combined with machine learning to improve regulatory element & variant effect prediction. Amazing work by @vagar.bsky.social, Fumitaka Inoue, @jshendure.bsky.social and many others as part of ENCODE. www.nature.com/articles/s41...

Dear meeting organizers: Picking the same senior PIs to keynote/give talks at meetings, who's talks I've seen a dozen times already, is not a great use of everyone's time. Nor does it highlight all of the rich talent in your field from more junior folks and peeps not at "elite" institutions.

who said scientists are smart?

🦋 Gourdon Lab 🦠🔬@delphe.bsky.social · 2y ago

🤔🙄🧪

Excited to share our review article "Finding functional microproteins", published in @TrendsGenetics. It was fun writing it together with Alex and @FeiyueYang1 in the lab. #microprotein authors.elsevier.com/a/1kNCscQbJB...

somehow this was the first thing came to my mind: Interviewer: Can you explain this gap in your resume? Me: I was updating my biosketch to the new format

Eugene Valkov@eugenevalkov.bsky.social · 2y ago

Interviewer: Can you explain this gap in your resume? Me: It’s an in-frame deletion.

I also believe that the current system of peer review and journal publishing is not working. I hope to witness and experience a system without those in my lifetime

Michael Eisen@mbeisen.bsky.social · 2y ago

In a world where publishing is a button and peer review can be carried out far more rapidly and effectively on public forums, our refusal to let go of a system that is slow, expensive and ineffective is causing substantive damage to science and society.

The total length of human DNA on the planet right now is thus: (3.4x10^-10) • (2 x 3.055x10^9) • (3x10^13) • (8.2x10^9) = 5.11 x 10^23 meters Time to call in NASA! 1 *light-year* – the distance light travels in one year – is 9.46x10^15 meters... So: 54 million light-years of human DNA!

We are hiring a technician to help with CRISPR screens. Prior experience with CRISPR screens and large-scale cell culture is preferred but not required. Please feel free to share: jobrxiv.org/job/columbia...

Question for faculty interviewing students for PhD admission: do you give feedback at the end to help them do better in future interviews? eg things they should change/clarify in personal statement/CV, that they need to prepare better/more questions for faculty, their weakness compared to peers, etc

Honored to receive the inaugural Glenn Foundation Discovery Award from @AFARorg! Also congrats to the other awardee Dr. Ya-Chieh Hsu @HSCRB. Come work with us if you are interested in testing new ideas in aging biology! www.afar.org/news/announc...

This has to be a great conference, just look at the speaker list! - Katalin Karikó, David Liu, John Maraganore, Chuan He, Melissa Moore, Georg Seelig, and of course my favorite, Phillip Sharp! Cracking the Code: The Dawn of Nucleic Acid Medicines conferences.nature.com/event/27e02c...