📢 Cincinnati Children's has once again been named to U.S. News & World Report’s Best Children’s Hospitals Honor Roll. Out of 108 pediatric hospitals, only 10 are selected as the top hospitals and listed on the 2024-25 Honor Roll!

MultiSC: a deep learning pipeline for analyzing multiomics single-cell data academic.oup.com/bib/article/25…

heatmap in ggplot2 yunuuuu.github.io/ggalign/articl… I always use complexheatmap, but this seems to be a good alternative if you want to stay within the ggplot. #rstats

🚀 We're thrilled to introduce Orthrus 🧬🐕—a groundbreaking mature RNA foundation model designed to push the boundaries of RNA property prediction! 🔬 What is Orthrus? Orthrus is a Mamba-based RNA foundation model, pre-trained using a novel self-supervised contrastive learning

#newPI here! 6 months in, no grants, 1 PhD student self funded, don't have money to fund equipment she needs for her experiment. Drowning in reviews, deadlines and unexpected admin every day. PhD student needs time I don't have. Just want to quit. Thoughts? Academic Chatter™

SOFA: Semi-supervised Omics Factor Analysis disentangles known sources of variation from latent factors in multi-omics data biorxiv.org/content/10.110…

Out today from Jinmiao Chen's lab! Spatial Transcriptomics Analysis with topic Modeling to uncover spatial Patterns (STAMP) is a versatile and scalable method for dimension reduction in spatially resolved transcriptomics. nature.com/articles/s4159…

Inferring Gene Regulatory Network Based on scATAC-seq Data with Gene Perturbation biorxiv.org/content/10.110…

Out today from Ruan, Betzig, Upadhyayula and colleagues! PetaKit5D offers versatile processing workflows for petabyte-scale light sheet microscopy data. nature.com/articles/s4159…

STAMP: Interpretable spatially aware dimension reduction of spatial transcriptomics nature.com/articles/s4159…

MultiSC: a deep learning pipeline for analyzing multiomics single-cell data academic.oup.com/bib/article/25…

🗨️ WANNA TALK TO YOUR CELLS? Try out CellWhisperer – our new multimodal AI that turns single-cell RNA-seq analysis into a conversation. No coding needed, just chat in plain English. Short walkthrough below. Web app & bioRxiv preprint linked in the thread. Let's dive in! (1/9)

scAGCI: an anchor graph-based method for cell clustering from integrated scRNA-seq and scATAC-seq data biorxiv.org/content/10.110…

Out yesterday from Baker, Sorger, and colleagues, comes CyLinter--quality control software for high-plex tissue profiling. nature.com/articles/s4159…

A gentle introduction to pangenomics academic.oup.com/bib/article/25…

Periodic Reminder To "Be Kind" 🙂 May the Kindness Be With You 🖖

Expert's Dilemma: the more specialized you become, the less open you are to creative solutions from other fields. But the more you explore other fields, the more you risk losing credibility in your home field. Interdisciplinary work is still not really embraced by academia.

This might be the first time after 10 years that boosted trees are not the best default choice when working with data in tables. Instead a pre-trained neural network is, the new TabPFN, as we just published in Nature 🎉

Something I've observed in academia but I suspect is true in industry as well: as you become more senior, you'll find that you can be much more productive if you spend all your time being a manager and letting junior people do all the real work. But after a few years of this,

Applications are open for our Caregiver Travel Grant 2025! Apply now for a chance to receive flexible funding to cover caregiving expenses while attending an in-person scientific conference! Apply: mothersinscience.com/caregiver-trav… 📅 Deadline: March 31, 2025 #WomenInSTEM Academic Mom, PhD