Nick Borcherding
@theHumanBorch
Assistant Professor @wusm_pathology | MD/PhD Pathologist using computers for oncology and immunology | Former Marine Corp Sgt
TCR2HLA: calibrated inference of HLA genotypes from TCR repertoires enables identification of immunologically relevant metaclonotypes biorxiv.org/content/10.110… #biorxiv_immuno
Researching at the intersection of HLA and viral infections - check out the special issue from Viruses. mdpi.com/journal/viruse…
scRepertoire now supports exporting clones directly into the immunarch workflow @immunomind. Immune cells crosstalk, why not R packages? Vignette: borch.dev/uploads/screpe…
dandelionR: Single-cell immune repertoire trajectory analysis in R is out! sciencedirect.com/science/articl… Checkout our package at github.com/tuonglab/dande… and on Bioconductor 3.21 onwards! Thanks to everyone involved! @theHumanBorch
Can a cancer exploit its environment and still resist treatment? Yes, through co-existing malignant subclones! Let me walk you through our latest study on how divergent evolution drives aggressiveness, and drug resistance of T cell cancer. 1/🧵 doi.org/10.1158/2159-8…
Delighted to share our recently published work in @NatImmunol. We show here that normalized microbial exposures in mice enhance memory T cell surveillance of the brain and modify seizure outcomes. nature.com/articles/s4159…
Nitin Karandikar, MD, PhD, has been named the enterprise chief strategy officer for University of Iowa Health Care, expanding his executive leadership responsibilities while he continues as professor and chair of the Department of Pathology. uihealthcare.org/.../karandikar…...
1/15 Want to decode pathway activity in single cells? Understand ssGSEA, GSVA, AUCell, and UCell—tools that score gene sets per cell. Here's how they work 🧵
Wait tell they see your new paper!! @theallinpod thanks for the shout out!!
I want to thank my friend Arjun for waking me up at 4:25 in. the. morning. to tell me about this. The podcast All In @theallinpod featured our work in @nature on #mitochondria transfer and transplantation. Bet you thought it was about something more pressing. Me too.
Incredible, neither data nor code nor weights are being made publicly available. @Nature publishes advertisements as Articles now I guess.
We’re excited to announce two @Nature publications from Project AMIE (Articulate Medical Intelligence Explorer), a research AI system optimized for diagnostic reasoning and conversations 💬 Paper 1: goo.gle/4lpQ8xg Paper 2: goo.gle/3G4DNPe
Happy #MatchDay to our new @washu_pathology residents! We’re all excited and eager to work with you!
Attention T cell biologists! New required reading from the one and only @golnaz_v on how the epigenome directs T cell fate and function. nature.com/articles/s4159…
scRepertoire now has a function to remove TCR/BCR VDJ genes from the variable features used for dimensional reduction. Friends don't let friends bias their clusters with indirect measures of clonal expansion. borch.dev/uploads/screpe…
Feature selection methods affect the performance of scRNA-seq data integration and querying❤️ nature.com/articles/s4159…
My co-first author paper was out. Cancer-specific innate and adaptive immune rewiring drives resistance to PD-1 blockade in classic Hodgkin lymphoma nature.com/articles/s4146…
Excited to announce a call for submissions for a special collection on T cell responses to influenza that I'm guest editing! If you're doing research in this area, I encourage you to submit your work. Feel free to reach out for information and see below. #BMCimmunology #Tcells
Happy to see the fantastic work by @zazius, @ScottBoydLab and coworkers finally out in @ScienceMagazine. Great demonstration of the potential of AIRR-Seq based diagnostics | science.org/doi/10.1126/sc…