RT @taekjip: high-throughput single-molecule platform to study DNA supercoiling effect on protein–DNA interactions .

RT @taekjip: Bringing the Genetically Minimal Cell to Life on a Computer in 4D

RT @SaurjaDasGupta: Possibly the first comics poster in 30 years of the @RNASociety Meeting. Exploring the history of the RNA World with ar….

(7/7) Our method enables enzyme-free detection of expanded repeats at the RNA level. It's a step forward for both basic biology and future clinical diagnostics. Huge congrats to Gerardo and an amazing collaboration with Savic's group!.🧬 Read the preprint:

(6/7) Finally, we made a DM1 cell model from patient-derived DNA and showed that we can detect repeat-containing mRNA directly from total RNA. This opens the door to understanding the biology of repeat RNA its processing, localization, and ASO therapeutic targeting.

(5/7) We also applied it to the PHOX2B gene, where expansion of just a few tandem repeats causes congenital central hypoventilation syndrome-1 (CCHS-1). We can distinguish between as few as six tandem repeats!.

(4/7) We tested this approach on myotonic dystrophy type I (DM1), a classic repeat expansion disorder. With our system, we can detect who has DM1 from RNA by identifying the number of CTG repeats, diagnostically relevant, and enzyme-free.

(3/7) Our solution? Ditch the enzymes entirely. Using solid-state nanopores, we directly analyze molecules without unfolding or copying them. That means no polymerase, no helicase, just the molecule and a nanopore. Structure formation? Not a problem with or RNA nanostructures!.

(2/7) Enzymes like polymerases and helicases stall or fall off when faced with long repeats. Even nanopore helicase-based systems get jammed. The repeats form strong secondary structures, hairpins, quadruplexes that stop sequencing in its tracks.

(1/7) Most sequencing technologies struggle with repeat expansion disorders, devastating genetic conditions caused by long, unstable tandem repeats in DNA or RNA. These include ALS, myotonic dystrophy, and others. But why is sequencing them so hard? 🧵.

Amazing work from the HaLab, and this interplay between biophysical properties and genome organization are so cool! Congrats to Sangwoo and an amazing team.

RT @SRouhanifard: Check out our new preprint! Much of the RNA modification work to-date uses immortalized cells but how does immortalizatio….

RT @taekjip: Learn how homology search might work in 3D genome! We combine very fast CRISPR and Hi C to look at 3D genome changes during DN….

RT @raj_pandya93: Still accepting applications for 2 fully funded PhD positions at the University of Warwick in ultrafast photonics and ene….

RT @taekjip: We finally posted a manuscript describing this tool predicting accurate 3D DNA mechanics from sequence and its applications to….

RT @Szokoli_Deni: Out now in @NAR_Open! A #ribozyme can self-integrate into and hydrolyze ss- & dsDNA, offering a new avenue for the develo….

RT @koolchemistry: Congrats to Edward Gao on the publication of his paper - an improved synthesis of damaged pyrimidines -.doi: 10.1080/152….

RT @RomanBarth2: We have been trying to figure out the mechanistic mysteries about SMC motor proteins. They extrude our genome constantly i….

RT @AllenInstitute: Using simulations, synthetic cells, and live archaeal cell communities, @SaricLab, @KGoepfrich, and Buzz Baum are chall….

RT @SaurjaDasGupta: The #DasGuptaLab is hiring a postdoc to develop RNA-based tools for sequencing modified RNAs. Ideal candidates should h….