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Reposted by Mitch Guttman

Waggoner Lab @labwaggoner.bsky.social · 22/07/2025

SPIDR enables multiplexed mapping of RNA-protein interactions and uncovers a mechanism for selective translational suppression upon cell stress @cellcellpress.bsky.social @mitchguttman.bsky.social www.cell.com/cell/fulltex...

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Mitch Guttman @mitchguttman.bsky.social · 26/07/2025

Many proteins bind RNA, yet we still don’t know what RNAs most bind because methods map one RBP at a time. In @cp-cell.bsky.social, with the Jovanovic lab, we describe SPIDR – a method for mapping the RNA binding sites of dozens of RBPs in a single experiment. www.sciencedirect.com/science/arti...

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Mitch Guttman @mitchguttman.bsky.social · 27/11/2024

Gene regulation involves thousands of proteins that bind DNA, yet comprehensively mapping these is challenging. Our paper in Nature Genetics describes ChIP-DIP, a method for genome-wide mapping of hundreds of DNA-protein interactions in a single experiment. www.nature.com/articles/s41...

nature.com

ChIP-DIP maps binding of hundreds of proteins to DNA simultaneously and identifies diverse gene regulatory elements - Nature Genetics

ChIP-DIP (ChIP done in parallel) is a highly multiplex assay for protein–DNA binding, scalable to hundreds of proteins including modified histones, chromatin regulators and transcription factors, offe...

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Reposted by Mitch Guttman

Josh Mendell @mendell-lab.bsky.social · 22/11/2024

Great thread on our paper from Jan👇

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Mitch Guttman @mitchguttman.bsky.social · 18/11/2024

A report made counterintuitive claims that PRC2 binds → more RNA than PTBP1 & hnRNPU → RNAs that do not exist in the cell We found a simple explanation: the authors ignore most RNA in the sample, leading to inflated background & misleading conclusions. www.biorxiv.org/content/10.1...

biorxiv.org

Failing to account for RNA quantity inflates background and leads to the misleading appearance that PRC2 and GFP bind to RNA in vivo

We recently published biochemical and quantitative evidence that challenges the widespread claims that PRC2 binds directly to many RNAs in vivo . A recent preprint performs a re-analysis of some of ou...

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Reposted by Mitch Guttman

Job Dekker @jobdekker.bsky.social · 14/11/2024

Leonid Mirny and I wrote this for all interested in chromosomes: "The chromosome folding problem and how cells solve it" www.cell.com/action/showP...

cell.com

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