antonigralak.bsky.social @antonigralak.bsky.social · 14/11/2024(8/8) Kudos to the Codebook and GRECO-BIT consortium members including @bartdeplancke.bsky.social, @halfacrocodile.bsky.social, @jk-swietek.bsky.social and see the whole team at ibis.autosome.org/docs/about_usibis.autosome.orgIBIS Challenge 000
antonigralak.bsky.social @antonigralak.bsky.social · 14/11/2024(7/8) If this sparked your curiosity, check out our paper on bioRxiv for more insights dx.doi.org/10.1101/2024.... Importantly, this project is only one of the multiple facets of the larger Codebook initiative, see dx.doi.org/10.1101/2024...dx.doi.org 100
antonigralak.bsky.social @antonigralak.bsky.social · 14/11/2024(6/8)💡Not just DNA motifs?! We have reason to believe that ZHX2 is potentially a new binder of Z-DNA, a left-handed DNA structure! Meaning, some TFs could be driven to their genomic loci by recognizing secondary DNA structures. 100
antonigralak.bsky.social @antonigralak.bsky.social · 14/11/2024(5/8)🔬Importantly, we show that these methylation-dependent binding patterns also happen in living cells—not just on the microfluidic chip! This means our findings have potential functional relevance in real biological contexts. 100
antonigralak.bsky.social @antonigralak.bsky.social · 14/11/2024(4/8) 📊 With meSMiLE-seq, we found alternative binding motifs for dozens of TFs! Some motifs only bind methylated DNA, while others avoid it. This methylation-dependent behavior adds a new layer to our understanding of TF function. 100
antonigralak.bsky.social @antonigralak.bsky.social · 14/11/2024(3/8)👨🔬Our study analyzed nearly 300 proteins using SMiLE-seq and 114 using meSMiLE-seq. It’s now the primary reference for SMiLE-seq data in the Codebook/GRECO-BiT collection, covering a wide range of poorly characterized TFs. 110
antonigralak.bsky.social @antonigralak.bsky.social · 14/11/2024(2/8)🔍Why meSMiLE-seq? The collaboration mainly focuses TF binding to unmodified DNA. We wondered if some uncharacterized TFs specifically interact with DNA modifications. With meSMiLE-seq, we directly compare TF binding to methylated vs. unmethylated DNA in a single selection step. 100
antonigralak.bsky.social @antonigralak.bsky.social · 14/11/2024(1/8)📢Excited to announce the bioRxiv submission of my work from the past three years! Introducing meSMiLE-seq, a microfluidic assay aimed to understand how DNA modifications impact transcription factor (TF) binding, as part of the large Codebook/GRECO-BIT collab dx.doi.org/10.1101/2024... ✨🧵 ⬇️dx.doi.org 142
