Our most recent Nature Cell Biology paper describes an innovative Perturbation-response Score (PS) method to decode heterogeneous responses of cells to perturbations at single-cell level. Particularly helpful for analyzing Perturb-seq data.

@BaoxuP Also immediately after this course (Oct 9-19) is the CSHA "Systems Biology of Gene Regulation and Genome Editing" conference (Oct 20-24). Great opportunity to attend both events in one place! @CSHANews.

We are delighted to organize this CSHA inaugural CRISPR course, this October, at the beautiful Suzhou City, China. Great opportunity for trainees/researchers to learn everything about genome engineering and interact with top scientists in the field. App ddl Aug 8.

I am thrilled to join UMSOM and work with many great scientists here!.

RT @pdhsu: Today @arcinstitute releases State, our first perturbation prediction AI model and an important step towards our goal of a virtu….

RT @baym: Yesterday, the NIH R35 “Outstanding Investigator” grant to fund scientists in my lab studying antibiotic resistance was terminate….

Another back-to-back paper describes the Mixscale model from Rahul Satija group at NYGC @satijalab . Also a great collaboration with many authors like @jsb_ucla @YaruiDiao @DanweiHuangfu ! @NatureCellBio

We tested our model in various settings including T cell stimulation, pancreatic differentiation, HIV expression, dosage response of essential genes etc. In particular, @MylliaBio provides a genome-scale Perturb-seq to trackle T cell stimulation (>500k single cells).

RT @JiaRayYu1: I'm thrilled to share my lab's first manuscript identifying that paraspeckle protein NONO regulates active chromatin through….

My 8-year old son's drawing on Eurocup #EURO2024

RT @howie_serious: 如何使用 ChatGPT 原理学会一切知识？读Wolfram 大神的神书《这就是 ChatGPT》之后的读书笔记. 读了李沐大神的《使用随机梯度下降来优化人生》，忍不住拍大腿。加上前面推荐了wolfram 大神的神书《这就是 ChatGPT….

RT @strnr: CRISPR-GPT: An LLM Agent for Automated Design of Gene-Editing Experiments

RT @BrianHie: In some new work (the first from the new lab!), we lay out a vision for a biological foundation model that unites DNA, RNA, a….

RT @BockLab: Would CRISPR screening help you discover new biology? Check out our methods primer for a hands-on guide (.

RT @MolecularCell: High-throughput PRIME-editing screens identify functional DNA variants in the human genome https….

RT @arcinstitute: 🧬New paper + tool out of @pdhsu @skonermann Labs, led by @StanfordBioE Ph.D. student @JingyiWei4: a new RNA targeting CRI….

A great collaboration experiences in many research groups around the world including @jsb_ucla @DanweiHuangfu @myllia @burckstummer @YaruiDiao and many others!.

PS enables studying cell-type specific gene functions. We tested PS in multiple Perturb-seq/scRNA-seq datasets in HIV latency and pancreatic differentiation. In particular, we discovered (and validated) a novel function of CCDC6 during pancreatic/liver differentiation (5/n).

We further applied dosage analysis of perturbations using PS, without the need to adjust perturbation strength, which is not easily scalable. For example, "sensitive" genes lead to strong expression responses even with moderate exp reduction (4/n)

We performed several benchmark studies to demonstrate the performance of PS, including a genome-scale Perturb-seq data generated by Myllia Biotechnology @MylliaBio (3/n)