Here is the program of 4th Penn Big Data Conference, Sept 16-17 at UPenn, featuring a distinguished line up of expert speakers in their respective field. web.cvent.com/event/47f55e50…

1/5 Looking to analyse 10x Genomics Visium HD datasets in Python? Check out Bin2Cell Teichlab! It joins 2μm spots into cells based on morphology images via nuclear segmentation and smart expansion. GitHub and Preprint: github.com/Teichlab/bin2c… biorxiv.org/content/10.110…

Are you registered yet for #PennBigData2024 (Sept. 16-17)? Biomedical and population health science leaders, such as Dr. Jean Fan (@JEFWorks), Assistant Professor at Johns Hopkins BME, will be convening at Penn to explore the landscape of #AI and causal inference. bit.ly/PennBigData2024

Excited to launch our cloud-based image analysis platform today at nimbusimage.org! Analyze and interact with your data, all in the browser. Follow sign-up instructions to request an account.

Thrilled to announce that I will join Penn as an assistant professor starting January 2025, with a joint appt in Penn Path & Lab Medicine and Dept. of Biostatistics, Epidemiology & Informatics! My lab will focus on multi-modal AI for digital pathology & healthcare. Check out zhihuang.ai for more information! 🧵1/n

New review from ⁦Cole Trapnell⁩ summarizing major statistical inference methods applied to single-cell, spatial, perturbation data to study gene function in healthy and disease states ⁦Nature Reviews Genetics⁩ nature.com/articles/s4157…

Tae Hyun Hwang, PhD (Tae Hyun Hwang) of Mayo Clinic (Mayo Clinic) will speak at the Conference on #BigData in Biomedical & Population Health Sciences. Join us for this hybrid conference on September 16-17. Hwang Lab: hwanglab.org Event Details: bit.ly/PennBigData2024

CellContrast now on Patterns journal. If only having single-cell but no spatial RNA, you may consider using it to infer spatial adjacency. It helps reduce false positives in detecting communicating cell pairs. We welcome issues and support customized designs. doi.org/10.1016/j.patt…

Happy to share that my career feature Nature Biotechnology will be available as open access for the next six months. nature.com/articles/s4158… The PDF version remains always freely accessible at rdcu.be/dE3Ae. Thank you Nature Biotechnology!

Dr. Linghua Wang (Linghua Wang, MD, PhD) MD Anderson Cancer Center, an #NCICSBC investigator, uses computational approaches to examine the tumor ecosystem, profile cells of the #TumorMicroenvironment, and understand tumor-immune-stroma crosstalk. mdanderson.org/research/depar… #SysBio4CancerResearch

Please join The 4th Penn Conference on Big Data in Biomedical and Population Health Sciences- Artificial Intelligence and Causal Inference in Population Health and Biomedicine. web.cvent.com/event/47f55e50…

🔥😀Super-super excited to report the publication of "Single-cell multi-omic and spatial profiling of human kidneys implicates the fibrotic microenvironment in kidney disease progression" in Nature Genetics rdcu.be/dONoW by Amin Abedini and Jon Levinsohn #kidney

⚡️🔬📣 Here are our two latest preprints on how AI for Pathology can advance pre-clinical drug safety and toxicity assessment. Work led by our superstar postdoc Guillaume Jaume: Deep Learning-based Modeling for Preclinical Drug Safety Assessment 📄 Preprint:

Madhura Mukhopadhyay, PhD, Senior Editor at Nature Methods will speak at the Conference on Big Data & Population Health Sciences this September. Madhura Mukhopadhyay Nature Methods Register now to attend virtually or in person: bit.ly/PennBigData2024

I'm sharing a public version of my talk slides CGSI-The Computational Genomics Summer Institute two weeks ago - an update from my #LLMs #compbio Primer talk last year - w/ a focus on genomics FMs (DNA, scRNA). As we're exploring related topics, we remain very interested but also skeptical. 1/3 cs.cmu.edu/~jianma/talks/…

Kathryn Roeder, PhD, Professor of Statistics and Life Sciences will be joining us from Carnegie Mellon University (Ray and Stephanie Lane Computational Biology Dept. Carnegie Mellon University.) Join us in-person or virtually by registering below. bit.ly/PennBigData2024

🤩Excited to share our Nature Methods comment on “Unlocking the Power of Spatial Omics with AI” nature.com/articles/s4159… co-authored with Kyle Coleman and Amelia Schroeder Dept. of Biostatistics, Epidemiology & Informatics. Big thanks to Rita Strack for inviting us to contribute.

We're so excited to announce our special issue on the use of advanced AI in biology across disciplines.

We are organizing a free virtual workshop on Python tools for the analysis of single-cell neuronal data. Please RT and register if interested! #Single_Cell #Neuroscience #Bioinformatics

In Nature Methods, Kyle Coleman, Amelia Schroeder & Mingyao Li (Dept. of Biostatistics, Epidemiology & Informatics) discuss the potential for #AI to unlock the full power of spatial omics, facilitating the integration of complex datasets & discovery of novel biomedical insights Penn Path & Lab Medicine tinyurl.com/yxywj925