Excited to share our new preprint CellContrast, a computational method to infer the spatial location for single-cell RNAseq data. Based on contrastive learning, this method is particularly powerful in preserving the local neighbourhood. biorxiv.org/content/10.110…

We have a cool tool for getting whole transcriptomes from spatial-omics datasets, so you can do standard analyses on it! SpatialScope leverages deep generative models on scRNAseq atlases to produce whole tx data from sparse spatial data. rdcu.be/dsknz Ask me Qs here!

If you are looking for a postdoc position at Hong Kong with CAR-macropjage and synthetic immunology, our lab is looking for a postdoc! Application 👉 jobs.hku.hk/en/job/523987/…

Excited to share the first paper from the Tian Lab! With Xiaodong(Ethan) Liu we together established reference and standard to compared multiple sequencing-based spatial transcriptomic (sST) methods. Here is the preprint and some highlights (1/n) biorxiv.org/content/10.110…

I’m very excited to share that my manuscript in Nature is out today! I am honored that our model is a part of the “method of the year” crowd, and with some exciting things to show in the full publication! (Including a new name: heX-Embryoids!) 1/n nature.com/articles/s4158…

I'm maintaining an active list of biology-related job openings at various levels (PIs, staff scientists, postdocs, PhDs, etc.). Please feel free to subscribe or contribute! github.com/brianpenghe/Bi…

Excited to share our latest collaborative work, Raman2RNA (R2R)! 🚀 Our long-term mission: Build AI models to 'generate' and 'predict' single-cell multi-omics data, evolving biology from 'mapping' to 'mapping+generation and prediction'. 🧬🤖 #DigitalBiology #TeamScience #Hiring

Researchers from HKU SBMS and HKUST have developed a breakthrough platform to generate functional immune cells from human expanded potential stem cells. The team expects the findings will provide new avenues for cancer treatment. Rio Sugimura For more: hkumed.hk/vuz

Very happy to have started my lab at Stanford Dev Bio @ Stanford earlier this month. We will be studying mammalian embryo development, plasticity and resilience. Check out our new website for more details: bowlinglab.org

Single Cell Genomics Day starts tomorrow at 10AM ET! Come for the awesome keynotes (Jason Buenrostro , Xiaowei Zhuang, IdoAmitLab) and to learn about our favorite new methods and trends for the field in the last year. All talks streamed on Youtube and satijalab.org/scgd

A bit slow on X but still super excited to share our Hist2Cell, predicting fine-grained cell types (e.g., 80 subtypes in lung) solely from histology images. For less funded labs to go for spatial RNAs, you can observe a lot more just from H&E stains (1/4) biorxiv.org/content/10.110…

Excited to share two preprints in my lab on computational lineage tracing (LT) of single cells. Preprint #1 - Benchmarking of mtDNA lineage tracing: biorxiv.org/content/10.110… Preprint #2 - A phylodynamics model framework (scPhylox) with single-cell LT data: biorxiv.org/content/10.110…

👋🏻Join us! 2024 HK Inter-University Postgraduate Symposium in Biochemical and Life Sciences aims to foster inter-institutional connections & interactions among local post-grads & PIs from various biochemical, biological, and life sciences research fields. 2024hkinteru.com/guidelineandre…

Our new preprint by undergrad Billy and star PhD candidate Yiming Chao 巢怡茗. Cool Yiming is corresponding! They data mined and defined senescent and lipidic TAM. aPD-L1 reprograms them to FOLR2+ TAM is responder hallmark bioRxiv shorturl.at/lhTK4

🚨𝐇𝐞 𝐋𝐚𝐛 job opportunity UC San Francisco 🚨: I'm hiring TWO postdocs - an experimentalist and a computational biologist. Join us to use cutting-edge single-cell and spatial technologies to unravel the mysteries of human tissues. opportunities.ucsf.edu/content/open-p…

Need a postdoc, want to work in HK, neuroimmunity and microglia? I'd be happy to help you apply for this: ugc.edu.hk/eng/rgc/fundin… please help spread the word

Thrilled to share our paper published in nature, where we uncover a new process of tumor initiation through a polyclonal-to-monoclonal transition at the @precancerous stage. So proud of my fantastic team (led by Zhaolian Lu ) and incredible collaborators! nature.com/articles/s4158…

We are thrilled to share that our first paper from my new lab, Spateo (github.com/aristoteleo/sp…) for spatiotemporal modeling of molecular holograms, is now online in Cell: cell.com/cell/fulltext/…. Spateo is a comprehensive analytical framework for 3D whole-embryo spatiotemporal

We are excited to publish a spatially resolved single-cell multi-omic census of the placenta, contributing to the Human Cell Atlas project. The placenta plays an essential role in maintaining a healthy pregnancy, yet its function remains poorly understood. nature.com/articles/s4159…

Our latest preprint on blood origin 🩸