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1/ Excited to see moscot-tools.org published in nature! We scaled Optimal Transport (OT) in single-cell genomics & added multimodality together with spatiotemporal trajectory inference, finding exciting new biology in the pancreas! 🚀 Read at nature.com/articles/s4158…

Spatial-Mux-seq is a multimodal spatial platform for simultaneously profiling the transcriptome, chromatin accessibility, histone modifications, and select proteins. Yanxiang Deng Marek Bartosovic Mingyao Li Pengfei_Guo Liran Mao nature.com/articles/s4159…

Spatial multi-omics has just gone to the next level! nature.com/articles/s4159… nature.com/articles/s4159… —Integration of 5 omic modalities w/ spatial resolution at 20 -50 μm —"a new era for characterizing tissue & cellular heterogeneity that single-modality studies alone could not

Check out this recent paper in Nature Methods from Yanxiang Deng which details the exciting work he is doing with spatial multi-omics technology that co-profiles five modalities simultaneously. 🔬: nature.com/articles/s4159…

Multiplexed spatial mapping of chromatin features, transcriptome & proteins in tissues ft. Pengfei_Guo, Liran Mao, Chin Nien Lee, Mingyao Li, Yanxiang Deng (Penn Path & Lab Medicine), Yufan Chen & Angelysia Cardilla (Penn Bioengineering) Penn Epigenetics Dept. of Biostatistics, Epidemiology & Informatics nature.com/articles/s4159…

🔊Call for abstract submissions for the 15th International Conference on Cerebral Vascular Biology #CVB2025! Learn more and submit by March 15, 2025: cvb2025.com Michigan Medicine Michigan Pathology

Interested in single cell genomics but need help getting started? Check out my lab's Single Cell Genomics Day on April 25. Talks will feature recent exciting computational and experimental advances and will be live-streamed at satijalab.org/scgd. Please RT/spread the word!

Excited to share our latest #Advanced_Science publication!🚀 Introducing Y-Hydroporator, a microfluidic gene delivery platform for next-gen NK cell therapy. Congrats to Hyelee and huge thanks to our co-authors! 🎉 advanced.onlinelibrary.wiley.com/doi/10.1002/ad…

Introducing RAEFISH, our lab's new flagship image-based spatial transcriptomics technology that simultaneously enables single-molecule spatial resolution and whole-genome level coverage of long and short, endogenous and engineered RNA species in cell cultures and intact tissues.

Super excited to launch nimbusimage.com, our cloud-based image analysis platform! nimbusimage.com Docs here: docs.nimbusimage.com Free tier available!

Interested in single cell genomics but need help getting started? Check out the full agenda for our Single Cell Genomics Day on Friday 4/25. All talks will be live-streamed (no registration required) at satijalab.org/scgd25

Perturb-tracing integrates CRISPR screening with barcode readout and chromatin tracing for loss-of-function screens, facilitating the study of chromatin folding regulators. Siyuan (Steven) Wang Yale School of Medicine Yale University Yale Department of Genetics Yale Cell Biology nature.com/articles/s4159…

Delighted to share a step-by-step protocol for spatially resolved epigenome-transcriptome co-sequencing to map tissue development, aging & disease. Fully committed to open science!! ⁦SenNet Consortium⁩ ⁦Human BioMolecular Atlas Program (HuBMAP)⁩ ⁦NIH Common Fund⁩ @NCIHTAN nature.com/articles/s4159…

Job alert! We are looking for postdoc interested in quantitative methods to understand metabolic programming in cancer and immune cells! Also recruiting technician to help manage lab instruments and projects. DM or email me or forward to anyone you think that might be interested!

Excited to see nuclei.io pathologist-AI collaboration framework featured on the Nature Biomedical Engineering April 2025 cover! This is my 2nd cover article after Nature Medicine! Letting AI to assist, not replace medical practice, will make the clinical decision-making faster, safer,

Congratulations to my Master's student, Lysia, on receiving the Outstanding Research Graduate Award!

Excited to share our new Science Magazine paper! Led by postdocs Ruchao Peng and Xin Xu, we used cryo-EM/ET to reveal the influenza ribonucleoprotein complex structure and its strand-sliding mechanism for RNA synthesis, paving the way for new antivirals. science.org/doi/10.1126/sc…

BREATHTAKING DISCOVERIES that change the world! Another first ⁦Penn⁩ and CHOP⁦⁦⁦Children's Hospital⁩ nytimes.com/2025/05/15/hea… via @NYTimes

Excited to share our lab’s first review about which cell types in the body can be the target to combat aging! We summarized ~100 single-cell studies of aging tissues, identifying aging-associated cell types strongly depleted or expanded across the body: shorturl.at/Oi3W8