I'm delighted to announce that I am joining the talented research community at BIG Center @WashU @wusm_pathology. The Han Lab, with a focus on brain #macrophages in neuropathologies, will be open shortly. More info and website coming soon!

Excited to share our latest work on bioRxiv! biorxiv.org/content/10.110… A highly collaborative effort with Kristy S. Mualim Alireza Karbalayghareh, maya sheth, Kushal K Dey, Evelyn Jagoda, PhD👩🏻‍🔬,Wang Xi, Lars Steinmetz, Anshul Kundaje (anshulkundaje@bluesky), Jesse Engreitz and many others from ENCODE Project! Thread👇

Excited to share our collaboration with ENCODE to map enhancer-gene regulatory interactions across the human genome! We developed a new model that beats ABC by incorporating additional information on promoter class and enhancer-enhancer interactions. Thread 👇

Whole genome association testing in 333,100 individuals across three biobanks identifies rare non-coding single variant and genomic aggregate associations with height biorxiv.org/cgi/content/sh… #bioRxiv

I'm so happy to see our paper on AI-guided design of synthetic enhancers published! We used deep learning models as an oracle to synthetically design cell type specific enhancers from scratch. nature.com/articles/s4158…

Gene expression involves thousands of proteins that bind DNA, yet comprehensively mapping these is challenging. We developed ChIP-DIP – a method for simultaneous, genome-wide mapping of hundreds of DNA-protein interactions in a single experiment. biorxiv.org/content/10.110…

SnapATAC2 is a non-linear dimension reduction algorithm tailored for single-cell omics data including scATAC-seq, scRNA-seq, scHi-C, and multiomics datasets. snapATAC is also efficient in runtime and memory usage. nature.com/articles/s4159…

Pinpointing causal variants that disrupt development. So proud of the amazing team on this epic enhancer genotype-to-phenotype study. Well Done, Fabian Lim, Joe Solvason, Genevieve Ryan, Sophia Le, Granton Jindal, Paige Steffen and Simran Jandu!!! doi.org/10.1038/s41586…

The prevalence of suboptimal affinity binding sites within enhancers creates a vulnerability in genomes whereby single-nucleotide changes that optimize affinity, even slightly, can be pathogenic. doi.org/10.1038/s41586…

Our work using single-molecule chromatin configurations to link TF binding to gene expression is now out on bioRxiv! Amazing effort from Benjamin Doughty, Michaela Hinks, and juliaschaepe, and an immensely rewarding collaboration with the Bintu Lab: biorxiv.org/content/10.110… [1/n]

Our study is out nature. We identify non-lipid risk pathways for coronary artery disease using pooled CRISPR-interference for 2,285 genes at GWAS loci. With an amazing team we identified the genetic risk pathways for CAD that act in endothelial cells. nature.com/articles/s4158…

Our latest in nature: Convergence of coronary artery disease genes on endothelial cell programs nature.com/articles/s4158… Incredible work led by Gavin Schnitzler and Helen Kang — a long-standing partnership between our lab and Raj Gupta My comments below: 1/

1. This validates the observation/hypothesis that causal genes for a disease are connected in gene regulatory networks — and shows that we can find them with systematic Perturb-seq and V2G2P. Here we linked 41 CAD GWAS loci to a single pathway in endothelial cells. 13/

nature.com/articles/s4158… I am very excited to share our recent paper on nature . It is a great collaboration with Dr. Murre and Dr. Fisch at UCSD. We discovered a molecular mechanism to shape nuclear morphology. Cleveland Clinic Lerner Research Institute

What if 1 million scRNA-seq libraries can be prepared within $1k? Here we go 👉 21 million cells from 623 mouse tissues, spanning 5 life stages & 3 genotypes, all in a SINGLE study by ONE remarkable student Zehao Zehao Zhang from our lab Rockefeller University! shorturl.at/epsz7

Single cell sequencing, gene expression, imaging and spatial omics deconvolute the heart's development in exquisite detail nature video: youtu.be/bGOgq7DMTGg

Link to paper nature.com/articles/s4158…

Thrilled to have couples matched at Brigham and Women's Medicine Residents with bethanyfixsen - we are so excited to start!!! Thank you to our family, friends, and mentors Neil Chi, Glass Lab, & Bing Ren #UCSDMatch2024 UC San Diego School of Medicine UCSD MSTP UCSD Biomed Sciences PhD Program

So incredibly grateful to have couples matched in San Diego with my wife Hana!!! Our 👶🏻 Grace and 🐶 Ozzy are overjoyed! #Match2024 UC San Diego School of Medicine WesternU COMP UCSDRadRes UCSD MSTP Albert Hsiao 蕭, MD, PhD, FNASCI, FSCMR 🐳 Albert Song San Ysidro Health

Great to see bethanyfixsen and James Hocker, MD, PhD featured in the Brigham and Women's Medicine Residents Bulletin! We are sad to see you leave California, but so excited for your new journey in Boston! bwhbulletin.org/2024/03/21/im-…