‼️⚠️Registration Deadline TODAY!⚠️‼️ Register now for the 'From Genetic Discoveries to Gene Function in Human Diseases' Conference to secure your slot and join us in Portugal from 13 - 16 July 2024 #GWAS24☀️🏌️ 🔗➡️bit.ly/4bnHuu6

Cofactors are a crucial part of the gene activation process. Yet, we still don't have a comprehensive understanding of how and why they are used by different genes. Proud to present our attempt to address this key question, now published nature.com/articles/s4158…

Check out ProCapNet by Kelly Cochran, a robust, local sequence context deep learning model of base-resolution transcription initiation profiles (PRO-cap) that provides deep insights into the cis-regulatory code of initiation & more ... biorxiv.org/content/10.110… 1/

Do human RNA-binding proteins have modular regulatory domains that downregulate RNA lifetimes? Our preprint Bintu Lab studying this question is now out on bioRxiv, where we indeed identify small domains in RBPs that potently induce RNA degradation! biorxiv.org/content/10.110… (1/9)

Exciting news! Jesse (Jesse Engreitz), Marlene (Stanford BASE), and I have recently received a CIRM grant, and we presumably ranked No. 1 based on the prior year's criteria! I am looking for a talented experimental postdoc to join my team. This position offers close collaboration

I am so excited to share this part of my PhD where we tackle the question: What impact do 3D contacts have on how enhancers regulate their target genes? biorxiv.org/content/10.110… 1/

Our latest preprint: Cohesin-mediated 3D contacts tune enhancer-promoter regulation We put the looping model of enhancer function to the test via enhancer CRISPR screens in a cohesin degron cell line See here 👇

Really excited about work led by Jesse Engreitz and Philine seeking to harmonize two long-standing & potentially contradictory observations: if cohesin is so important to the formation of chromatin loops, why doesn't degrading it have a bigger impact on gene expression?

(1/16) Check out our Simon Gaudin paper tiny.cc/icuazz from the Canzio lab out in Science Magazine today on how tuning local cohesin trajectories enables differential readout of the clustered Protocadherin (Pcdh) locus across different types of neurons.

Excited to share the white paper for the IGVF Consortium, supported by National Human Genome Research Institute Deciphering the impact of genomic variation on function rdcu.be/dSZdm

Air purifiers in Finnish daycare reduced children's illnesses by 18% in a carefully controlled study. This implies huge potential for better public health and cost savings from sick leaves, with a simple intervention against airborne infections. yle.fi/a/74-20089670

1/14 Excited to introduce PertEval-scFM! It provides benchmark and evaluation tools for perturbation effect prediction models, including single-cell foundation models (scFMs). Paper and GitHub link at the end of the thread! 🧵👇

Today, I'm excited to present the second big chunk of my Ph.D. work. We are building a thorough assessment of the burgeoning field of gene expression forecasting. Something is deeply wrong.🧵 - Preprint: biorxiv.org/content/10.110… - Code: github.com/ekernf01/pertu…

Happy to share our new work describing DESynR genes! The evolution of new human protein-coding genes relies on repurposing protein domains from ancestral genes, rather than de novo sequence creation. New genes evolved from old parts, and while we have methods that enable

Introducing scE2G: a new model to link enhancers to target genes using single-cell data. Excited that scE2G will enable building enhancer maps in hundreds of cell types in the human body! Wonderful collaboration with Robin Andersson Wei-Lin Qiu maya sheth and others 👇

Donald Trump is making a deliberate attempt to overwhelm the system, and to overwhelm you. It can be difficult to keep up. And that’s by design. But we can keep up – and respond. Here’s what he’s doing, and what it means for you. Just the facts. 🧵⤵️

Giving infectious disease research a break, as promised by the MAHA agenda. Let's break down what exactly this Executive Order is *really* saying. Fortunately, I speak fluent anti-vax grifterese & can translate. whitehouse.gov/presidential-a…

1. What you see here is clearest illustration why things are so messed up and why it cannot get any better until this asymmetry is addressed. Put simply: right-wing has narrative dominance. My org (Media Matters) did this study and been sounding this alarm for years. Some thoughts...

Here are 10 ways that Trump’s Big Ugly Bill will make your life more expensive: 1. Your utility bills go up as we lose clean energy investments and electricity costs more; 2. Your rent goes up as predatory housing companies artificially jack up prices;

Jesse Engreitz & I are looking to hire a computational biologist/biostatistician with project management expertise to collaborate with our teams to map the regulatory code of the human genome and discover genetic mechanisms of disease. Details & application in next post 1/