Fred Chedin @flchedin
The Chedin Lab @ UC Davis. All about R-loops! Director of the MCB T32 training program. Passionate about grad education, mentoring, and rigorous science. chedinlab.faculty.ucdavis.edu UC Davis Joined July 2015-
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Fred Chedin retweeted
Very excited to announce ENCODE GRAMMAR (Genomic Regulatory Atlas of sequence Models, Motifs, Annotations & Rules): 3,865 experiment-specific deep learning model sets and sequence annotations for decoding human regulatory DNA. 1/
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Fred Chedin retweeted
Excited to share my piece in @NatureCareers on why scientists are already trained for AI, plus ten places to start. 🔬🧪🤖 nature.com/articles/d4158… Hope it helps! 🙏 Incredibly grateful to editors Jack Leeming and Jeff Perkel for the opportunity and collaboration.
Fred Chedin retweeted
Why is the X chromosome rich in L1 mobile elements? @ScienceMagazine X-chromosome inactivation draws L1 mutagenesis to the human X chromosome | Science science.org/doi/10.1126/sc…
Fred Chedin retweeted
RNA-seq tells us how much RNA is present in the cell. But to understand gene regulation, we need to easily measure the synthesis and decay rates driving this abundance. We introduce AIR-seq: analog intrinsic recoding sequencing. (1/6) biorxiv.org/content/10.648…
Fred Chedin retweeted
A spliceosome-independent eukaryote generated by complete intron removal: Cell cell.com/cell/fulltext/…
Fred Chedin retweeted
Introns have a hidden regulatory role! 🧬🎉 Delighted to share our latest paper showing that inefficiently spliced introns and spliceosomal proteins direct RNA methylation, engaging RNAi to silence retrotransposons and regulate gene expression nature.com/articles/s4146…
Fred Chedin retweeted
Beyond housekeeping: snRNA diversity, regulation, and human disease dlvr.it/TTCWvT
Fred Chedin retweeted
🎉In this fun collaboration with @yeo_lab, we screened over 800 RNA-binding proteins for their activities in regulating poly(A) selection and found some expected hits! Co-led by @pratibhajagann_ from Gene's lab and @YoseopYoon in my lab. Molecular Cell cell.com/molecular-cell…
Fred Chedin retweeted
🧬 ⛓️💥 Our paper is now out in @NatureSMB! We examined the fate of replication forks that collapse at single-strand DNA breaks (SSBs) in vertebrates 🐸, comparing the consequences of collapse at single vs convergent forks. nature.com/articles/s4159…
Fred Chedin retweeted
Online Now: Apical localization of RNA polymerases modulates transcription dynamics and supercoiling domains revealed by cryo-ET dlvr.it/TSVTdL
Instructure, the company running Canvas apparently hit by ransomware attack affecting 1000s of school worldwide. This was my screen an hour ago as I was about to post a quiz. Great….
Fred Chedin retweeted
1/ Preprint alert 🚨🚨🚨 How do cells decide where an mRNA should end? And how is that decision coordinated with splicing and transcription while the RNA is still being made? Here's what first author @HopeMerens found 👇
Fred Chedin retweeted
Detecting plectonemes using RCMC nature.com/articles/s4158…
For contact probability, we used Region Capture Micro-C (RCMC) a methods developed by @Anders_S_Hansen's lab which supports targeted pulldown of a region of interest (figure from Goel, V et al. Nature Genetics. 2023) . Since we are just looking at one locus (CLYBL), we want to
Fred Chedin retweeted
Water is 70–80% of a cell, with our mspSA + SGAG affinity grid, we capture a near atomic (<2 Å) view showing water actively driving gene transcription inside RNA Pol II. Not just background,water is part of the machinery. Now published in Molecular Cell.doi.org/10.1016/j.molc…
Fred Chedin retweeted
Could the folding of synthetic gene circuits in 3D shape how genes are expressed? Today @ScienceMagazine we report on the role of gene syntax in shaping feedback between transcriptional activity and genome folding for advanced circuit design🧵 (1/n)
Fred Chedin retweeted
Excited to share our discovery of a new programmable RNA-guided DNA-targeting system hiding inside bacteriophages that predates CRISPR. We call it VIPR (Viral Interference Programmable Repeat), and it uses an entirely new logic to find its targets. Thread + link below.
Fred Chedin retweeted
3D genome architecture underlies health & disease, but its biochemical basis is hard to study at scale. We present Plate-C: a screening platform that profiles thousands of whole-genome 3D maps in a day ($4 each), discovering many pathways that rewire DNA: biorxiv.org/content/10.648…
Fred Chedin retweeted
🚨Why can’t mammals regenerate limbs like frog tadpoles or salamanders? In our new paper in @ScienceMagazine, we show that species-specific oxygen sensing acts as a gatekeeper for initiating limb regeneration 🐭🐸 🔗 science.org/doi/10.1126/sc… #EvoDevo
Fred Chedin retweeted
Our paper is out in @ScienceMagazine Here we describe how stem cell retain epigenetic inflammatory memory long-term. Full text in the link below! Congratulations @chris_cowley14 @SairajSajjath @LFSoto12 and everyone else involved! science.org/doi/10.1126/sc…
Fred Chedin retweeted
Our most recent work on the “function and evolution” of #nuclear_speckles is now online at Cell @CellCellPress cell.com/cell/fulltext/… Read the thread 👇for the highlights of our findings.
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669 Followers 4K Following Physical activity and mental functions, physical literacy, critical thinking, photography, chess, mountaineering, skiing, search and rescue in nature.🧗♂️
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Vindigni lab @VindigniLab
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🔬 R-loop @R_loop_papers
919 Followers 10 Following Hi, I'm a bot. I crawl Pubmed and BioRxiv for new papers on R-loops. Follow me if you're a DNA:RNA hybrid kinda person.
Molecular Cell @MolecularCell
150K Followers 517 Following Molecular Cell is a Cell Press journal that aims to publish the best papers in molecular biology.
Gaëlle Legube lab Ch... @LabLegube
2K Followers 158 Following The Legube lab at CBI in Toulouse investigate the function of chromatin in DNA Double Strand break repair
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3K Followers 1K Following No longer posting on this nazi, mysoginist, masochist hell hole. Ask yourself: should you be? Join me on BlueSky instead.
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Chetan Rawal @Chetan109Rawal
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Mathilde Siraud @Mathilde_Sd
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Samah W. Awwad @SamahAwwad3
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526 Followers 156 Following
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Elisa Zhang, PhD @ElisaTZhang
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Weston Powell, MD, Ph... @wtpowell
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Marcus Smolka @MarcusSmolka
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Mariele Lensink @LensinkMariele
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Ruth Lehmann @REMLehmann
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Dr. Anthony Letai @NCIDirector
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