Gene regulation involves thousands of proteins that bind DNA, yet comprehensively mapping these is challenging. Our paper in @NatureGenet describes ChIP-DIP, a method for genome-wide mapping of hundreds of DNA-protein interactions in a single experiment.

RT @brangwynnelab: Excited that our nucleolus mapping paper just came out today in Nature! Truly an amazing study from even more amazing du….

RT @IgorUlitsky: Stop the doom scrolling! A new 🗞️ from my lab, describing one of our flagship projects of many years we are super excited….

RT @LabSantoro: Very excited to share our latest work in @MolecularCell showing NPM1 stabilizing the association of nucleolus associated do….

RT @belmont_andrew: Happy to share our recent work showing bulk transport of speckle material between nuclear speckles within dynamic, mult….

RT @disney_lab: We've designed an RNA-targeted small molecule that reduces toxic 4R tau protein linked to FTDP-17. This orally bioavailable….

RT @IgorUlitsky: New preprint 📜 from @AlanMonziani in the lab – EPB41L4A-AS1 long noncoding RNA acts in both cis- and trans-acting transcri….

RT @yodai_takei: Excited to share our new paper out in @Nature revealing cell-type specific nuclear organization and its link to gene regul….

RT @mitchguttman: Gene regulation involves thousands of proteins that bind DNA, yet comprehensively mapping these is challenging. Our paper….

This work was led by co-first authors Drew Perez (@AndrewPerez9201) and Isabel Goronzy (@uclacaltechmstp student) and our amazing team @caltech, and funding from @genome_gov @GenomeTDCC.

By enabling the generation of consortium-level datasets within any molecular biology lab, ChIP-DIP facilitates a fundamental transition from ‘reference-maps’ to context-specific maps and represents a transformative new tool for dissecting cell-type specific gene regulation.

We used ChIP-DIP to explore quantitative combinations of histone modifications that define distinct classes of regulatory elements and integrated these signatures with regulatory factor binding to identify their functional activity.

We used ChIP-DIP to measure temporal chromatin dynamics in primary mouse dendritic cells following stimulation and correlate these with transcriptional changes. For this, we mapped multiple time points within a single experiment, multiplexing across both proteins and samples.

ChIP-DIP generates highly accurate maps for ALL classes of DNA-associated proteins, including histone modifications, chromatin regulators, transcription factors, and RNA polymerases.

ChIP-DIP uses a simple antibody-labeling strategy followed by split-and-pool barcoding to multiplex DNA-protein mapping. This enables the rapid generation of consortium-level datasets within any molecular biology lab without the need for specialized training or equipment.

RT @ShechnerLab: It's my pleasure to present the next big preprint from SheqLab! An exciting application of our O-MAP platform that I hope….

RT @Mendell_lab: I’m thrilled to share this story from @Mendell_lab and Jan Erzberger labs, led by postdoc extraordinaire Xiaoqiang Zhu! We….

RT @mitchguttman: A report made counterintuitive claims that PRC2 binds.→ more RNA than PTBP1 & hnRNPU.→ RNAs that do not exist in the cell….

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.

RT @_prashantbhat: Delighted to read this article by @TheScientistLLC featuring our work on nuclear speckles! Also features quotes from @m….