Cancers are genetic/phenotypic polymorphs, a quasispecies of cellular entities that dances around immune system attacks. We detail an approach to dissect the patchwork behavior of tumors using deep spatial profiling alongside a novel barcoding strategy. sciencedirect.com/science/articl…

So happy to share STELLAR to annotate spatial-omics datasets in Nature Methods. It saves me time and improves the accuracy of cell type labels while revealing new cell types. Great collaboration with Kaidi Cao Maria Brbic Jure Leskovec Garry P. Nolan Yuqi Tan Ph.D. as a part of Human BioMolecular Atlas Program (HuBMAP).

Our new preprint from DietrichLab, @wolfgangkhuber's and Garry P. Nolan’s lab is online: The T cell landscape across nodal B cell #lymphoma defined by CITE-seq, scTCR-seq, FACS and CODEX: biorxiv.org/content/10.110…

You can now read the November issue of Cancer Cell: cell.com/cancer-cell/is…

So excited to see the fruits of labor in print from the amazing Bokai Zhu, Shuxiao Chen, Zongming Ma and Garry P. Nolan! Still recovering from a late start the 2023 with the family finally 🤞recovered from a non covid bug. Will do a tweetorial soon with updates from our preprint!

Human languages have similar structures that describe the world. Researchers use the parallel languages of proteins, RNA, & epigenetics to describe cells/tissues. Such similarities can now fuse independent modalities w/ high fidelity. biorxiv.org/content/10.110…

Checkpoint inhibitors and BRAF/MEK inhibitors advanced melanoma treatment in recent years. However, treatment failure is still common. Explore chances and limitations of combination treatments and sequencing strategies in our current review. doi.org/10.1007/s10555…

How does the organization of T cells within the tumor microenvironment help predict treatment responses for head-and-neck cancer patients? Find out in our latest manuscript. It´s been a great collaboration! Arnulf Mayer doi.org/10.3389/fimmu.…

Couldn’t be more excited to be joining Duke Biomedical Engineering! If you or someone you know is excited to join a young PI with lots of ideas and a lab crammed with caring, curiosity, collaboration, consistency, and creativity - ping me!

There are hidden and embedded relationships in deep data that allow information transfer across knowledge domains (read that as RNA, protein, chromatic) even with "weakly linked" datasets. What does this mean? It means, to me, the end of worrying about running all 'omic

New #JITC article: Treatment management for BRAF-mutant melanoma patients with tumor recurrence on adjuvant therapy: a multicenter study from the prospective skin cancer registry ADOREG bit.ly/3PoapV6 Max Haist

🧵 1/ Super excited about our published study in Cell Reports shedding light on how T cells impact tumor environments using multiplexed imaging. #Immunotherapy #SpatialOmics #Tcells sciencedirect.com/science/articl…

Fantastic and inspiring work by John Hickey and honored to be part of the Team! Explore T cell dynamics within the tumor microenvironment in the course of melanoma progression and how modulating T cell therapies can help re-establish tumor control.

🔥Absolutely thrilled to share a pair of papers out in Cell Press of work done with @garrypnolan. 🔬 T cell mediated restructuring of the tumor microenvironment - doi.org/10.1016/j.celr… 🧬 Extracting spatiotemporal mechanisms from spatial-omics data - doi.org/10.1016/j.cels…

1/4 Is it possible to perform end-to-end computational analysis on multiplexed images with minimal programming experience? Yes, it is! We present SPACEc, A Streamlined, Interactive Python Workflow for Multiplexed Image Processing and Analysis. Paper: doi.org/10.1101/2024.0…

I’m thrilled to announce that I’ve officially started my own lab as an Assistant Professor in the Department of Urology at Stanford University! Stanford Urology Stanford Medicine Stanford Cancer Institute Stanford University I owe immense gratitude to my graduate and postdoc mentors for their unwavering

Preprint: distinct immune-response patterns between virus-positive and virus-negative Merkel cell carcinoma and their impact on metastasis and checkpoint blockade-response Max Haist Magdalena Matusiak Yuqi Tan Ph.D. Garry P. Nolan John Hickey biorxiv.org/content/10.110…

🧵 Highlights from our study on Merkel Cell Carcinoma: 📍 8M cells, 60-patient spatial atlas 🦠 Virus(+) vs virus(–) MCC spatial features 🔥 CXCL9⁺ DCs–CXCR3⁺ CD8 T cell niche in virus(+) MCC 🧬 Confirmed in HPV⁺ oropharyngeal cancer 🎯 Biomarkers for metastasis & ICB response