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Delighted to present our second paper of the year. This one explores the molecular mechanism of TTP, a key post-transcriptional regulator of AU-rich mRNAs. Work led and coordinated by @filippekovic.bsky.social, in collaboration with Perry Blackshear.

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

Multivalent interactions with CCR4–NOT and PABPC1 determine mRNA repression efficiency by tristetraprolin - Nature Communications

Deadenylation leads to mRNA decay, with PABPC1 protecting the poly(A) tail, while tristetraprolin and CCR4–NOT promote deadenylation. Here, the authors describe how these three proteins interact to re...

www.nature.com

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Stephen Floor @snf.bsky.social · Aug 12

some of the blends in this are 🤯

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Stephen Floor @snf.bsky.social · Jul 31

I remember when OS updates were like "we will protect your computer from viruses and make it faster" and now they lead with

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Stephen Floor @snf.bsky.social · Jul 25

congrats and excited to dig in!

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Reposted by Stephen Floor

Vikram Agarwal @vagar.bsky.social · Jul 25

Paper 2 -- Translational co-regulation detected in mammalian cells www.nature.com/articles/s41...

A deeper explanation of the human story, scientific conclusions, and Github/Zenodo links to use the pre-trained models: www.linkedin.com/feed/update/...

Translation efficiency covariation identifies conserved coordination patterns across cell types - Nature Biotechnology

Matched ribosome profiling and RNA sequencing data quantify translation efficiency patterns across 140 human and mouse cell lines.

www.nature.com

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Reposted by Stephen Floor

Vikram Agarwal @vagar.bsky.social · Jul 25

Very excited that our most significant work, a collaboration w/ Dr. Can Cenik at UT Austin on translational gene regulation, was finally published in Nature Biotechnology in a dual set of studies:

Paper 1 -- an AI model trained to predict translation rates from mRNA sequences: rdcu.be/exN1l

Predicting the translation efficiency of messenger RNA in mammalian cells

Nature Biotechnology - A deep convolutional neural network model predicts the influence of the full-length mRNA sequence on translation efficiency.

url.de.m.mimecastprotect.com

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Stephen Floor @snf.bsky.social · Jul 25

Another example of spurious effects when you try to interpret RNA biology from DNA introduced into cells without confirming exactly what RNA processing is happening. Important and common confounder - great paper!

DjuranovicLab at Brown University RNA Center @djuranoviclab.bsky.social · Jul 25

Our collaboration with Tony Mustoe's lab us out today. MPRA libraries and possible cryptic splicing in MPRA reporters, or reporters in general. The additional novelty here is that such events are controlled or influenced by AU-rich sequences.

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

U-rich elements drive pervasive cryptic splicing in 3’ UTR massively parallel reporter assays - Nature Communications

Massively parallel reporter assays (MPRAs) are powerful technologies for measuring the impact of non-coding sequences on gene expression. Here, the authors demonstrate that MPRA reporters often underg...

www.nature.com

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Stephen Floor @snf.bsky.social · Jul 24

watch out for the proximity mine near that door

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Reposted by Stephen Floor

Mike Feigin 🥯 @mikefeigin.bsky.social · Jul 23

“With these considerations, we expect to fund through the 4th percentile.”

There it is, in black and white, the destruction of cancer research in the US.

Edwin Antony @professorantony.bsky.social · Jul 23

Funding policy for 2025 from NCI. Was just released: 4 percentile…maybe!
www.cancer.gov/grants-train...

Funding Policy - Research Grants

NCI funding policy for research project grant (RPG) awards reflects the funding goals of the institute, NIH, and HHS.

www.cancer.gov

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Stephen Floor @snf.bsky.social · Jul 12

apropos of nothing, a strong rec for “The Tyranny of Merit”, in which Sandel notes a putative meritocracy “fosters a sense of entitlement among the successful while humiliating those who do not succeed, ultimately undermining the common good and social solidarity”

bookshop.org/p/books/the-...

The Tyranny of Merit: Can We Find the Common Good?

Can We Find the Common Good?

bookshop.org

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Stephen Floor @snf.bsky.social · Jul 12

this is an example of the so-called meritocracy that’s threatened by introspection on who gets into college and why

NYTimes: affirmative action for mediocre conservative editors @originalist.bsky.social · Jul 4

"Nearly half of white students admitted to Harvard between 2009 and 2014 were legacy students or Dean’s Interest List—a list of applicants whose relatives have donated to Harvard, the existence of which only became public knowledge in 2018"

75% of them would not have been admitted otherwise

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Stephen Floor @snf.bsky.social · Jul 11

the vibes seem off

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Stephen Floor @snf.bsky.social · Jul 11

super curious what these people are like irl, like are they arguing with someone in the grocery store because they're buying organic (or not organic)? someone at the gas station who chooses low octane fuel? someone at a pharmacy who's getting vaccinated? or are they just internet warriors

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Stephen Floor @snf.bsky.social · Jul 7

great review on the myriad ways that genetic variation in mRNA untranslated regions can cause disease!

Nicky Whiffin @nickywhiffin.bsky.social · Jul 4

Ever craved a review that details the diverse mechanisms through which UTR variants have been show to cause rare disease??? Or maybe just curious?

Well this review, written by the amazing Dr @nechamawieder.bsky.social , is for you 🤓🧬🩺

Nechama Wieder @nechamawieder.bsky.social · Jul 4

Super excited to share our new review paper - The role of untranslated region variants in Mendelian disease!
www.nature.com/articles/s41...

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Stephen Floor @snf.bsky.social · Jul 4

This July 4 I celebrate my country born by separation from a tyrannical king, with the principles that all people are created equal and that the government represents the will of the People, not a monarch. The unalienable rights of Life, Liberty, and the pursuit of Happiness. Let freedom ring!

Zohran Kwame Mamdani @zohrankmamdani.bsky.social · Jul 4

America is beautiful, contradictory, unfinished. I am proud of our country even as we constantly strive to make it better, to protect and deepen our democracy, to fulfill its promise for each and every person who calls it home.

Happy Independence Day. No Kings in America.

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Stephen Floor @snf.bsky.social · Jun 24

absolutely love this new tour of the cosmos using the Skyviewer app built using new images off the Vera Rubin telescope - gorgeous and great explanations skyviewer.app/tours

Astronomical Tours | Skyviewer

skyviewer.app

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Stephen Floor @snf.bsky.social · Jun 18

whenever I need some sunshine I turn to cientotres 103.1 FM out of San José, Costa Rica
radios-de-costa-rica.com/1031-fm

103.1 FM Cientotres en vivo, Costa Rica

103.1 FM es una emisora de radio de Costa Rica que emite en San José. Escucha gratis música dinámica para jóvenes del género rock y pop.

radios-de-costa-rica.com