Caleb M. Radens
@Radlinsky
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RNA is my jam
Joined April 2009
Come join us at rm 104 at 12 noon tomorrow (Friday) to enjoy the finest sandwiches that Colorado Convention Center has to offer, AND to hear about the world's largest cohort for genomics research - Our Future Health - and how it can enable your research #ASHG2024 @ukfuturehealth
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You want to know who won? Find out who refuses to do a 2nd debate.
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Genetic evidence halves the odds of early clinical trial stoppage 🧬💊 Published today in @NatureGenet, @lesya_rzvvsk trained a machine learning classifier to analyse the free-text reasons explaining why 28,842 clinical trials stopped 3 key points: https://t.co/buMPpOQzPk
nature.com
Nature Genetics - Natural language processing of stopped clinical trials finds associations with the strength and extent of genetic evidence, suggesting that incorporating such evidence during...
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I´m thrilled to see our #LRGASP paper published in @naturemethods today. This is the work of many to benchmark long-read methods for transcriptomics, and a must-read paper for those using lrRNA-seq. Special thnks to @FJPardoPalacios and @TheBrooksLab (1/6) https://t.co/xdLwq3LvLU
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Great to see this paper published! @xiaoting_l and @HarmenBussemkr developed a really creative way to robustly quantify TF activity, which we then used as a phenotype in GWAS.
Excited to share that our paper came out in Cell Genomics last week. We developed a model to estimate TF regulatory activity from GTEx RNA-seq data and mapped genetic variants (“aQTLs”) predictive of this virtual trait.
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We identified a mechanism by which the homeostasis of class of proteins with similar low complexity domains (LCDs) is collectively regulated – ‘interstasis’. Interstasis operates at the level of the RNA that encodes those LCDs by exploiting the structure of the genetic code.
Mutual homeostasis of charged proteins https://t.co/Ecj9RsZatd
#biorxiv_molbio
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In new work, @LambdaMoses et al. introduce the Voyager platform for spatial and non-spatial 'omics analysis: 🚴♀️ Builds on the geospatial statistics tradition 🚴♀️ Addresses discordance between Seurat & Scanpy 🚴♀️ Engineered in R (@Bioconductor) & Python https://t.co/LR9hZdNRxK 1/🧵
biorxiv.org
Exploratory spatial data analysis (ESDA) can be a powerful approach to understanding single-cell genomics datasets, but it is not yet part of standard data analysis workflows. In particular, geospa...
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Excited to announce our latest preprint! Check out this work from visiting scientist Lindsay Romo and postdoc Scott Findlay, leveraging our knowledge of RNA regulatory features to interpret and prioritize 3'UTR variants in humans 🧬🤔🎉 https://t.co/cMmUJgejmF
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Thank you to @BBSRC for funding our proposal on the role of human-specific TEs in human neurodevelopment. We will be soon advertising a 3-year postdoc position. If you are interested feel free to email. The project will involve iPSC/organoids/scRNA-seq/CRISPR and more! Please RT
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SOO excited to see the final LRGASP preprint out! The largest benchmark of #longreads for transcriptomics. A must-read if you plan on doing lrRNA-seq. Thanks to so many for the huge work @FJPardoPalacios @TheBrooksLab @MarkDiekhans @GSheynkman @calizavi
https://t.co/A5NiJjm690
biorxiv.org
The Long-read RNA-Seq Genome Annotation Assessment Project (LRGASP) Consortium was formed to evaluate the effectiveness of long-read approaches for transcriptome analysis. The consortium generated...
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Please join us for an exciting #RNA Day (AUG 1) celebration (with BEER!) co-hosted by RBI, @ColoradoRNAClub, and @projbridgeco. All are welcome! Come learn about RNA Biology in simple, everyday language @KyleClark and @9NEWS watchers!
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Angiotensinogen RNA interference to lower BP. The new era of RNA therapeutics might be here. https://t.co/0aWDxilShA
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Summary of current bike access to @PennMedicine research buildings. This is the worst of Philly bike-unfriendliness - @Penn could do much more to use its bully pulpit and resources to make its campus accessible by bike, which would help it attract and retain employees.
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Can current genomic sequence-to-expression models explain expression variation across individuals based on their personal genome? In the Ioannidis Lab at UC Berkeley, we evaluated 4 state-of-the-art models for this (Enformer, Basenji2, ExPecto, Xpresso) https://t.co/WVpPMWQNcs
biorxiv.org
Genomic deep learning models can predict genome-wide epigenetic features and gene expression levels directly from DNA sequence. While current models perform well at predicting gene expression levels...
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📢 Paper alert! Are you interested in #RNA Alternative Polyadenlyation (APA)? Maybe you quantify APA from RNA-Seq? But there are so many methods for that - which method should you be using?? 🤔…1/n
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Nouveau labo! Je cherche des étudiant(e)s gradué(e)s voulant travailler dans le domaine de l'épissage de l'ARN en #cancer et #immunologie. New lab! I'm looking for grad students interested in #RNAsplicing in #cancer and #immunology
https://t.co/BwcE57iEwh
@jrRNAscientists
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The business model of Hindenburg Research is fascinating: They produce some of the best, in-depth investigative journalism, aiming to expose shady actors, which are *always* publicly traded companies. They do this for free: as they short the stock when they publish the report.
NEW FROM US: Tingo Group: Fake Farmers, Phones, and Financials—The Nigerian Empire That Isn’t https://t.co/V9ug1dli3w (1/n)
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