im going to be SICK

As my lab develops Seurat, I wanted to share some thoughts on the important Seurat and scanpy package selection preprint from Joseph Rich/Lior Pachter 🧵

'Nobody uses UMAP distances'.

... and still statistician Terry Speed decided to testify on behalf of O.J. Simpson.

Major new work out from Manny Ares 🥑

Intron-lariat spliceosomes convert lariats to true circles: implications for intron transposition biorxiv.org/content/10.110…

My reading this week on kNN graphs (by Morteza Alamgir and Ulrike von Luxburg).

I'm late to t-SNE & UMAP party?
In this plot yellower points are more on the outskirts of the data in fully dimensional space
so this representation can be even inside out in relation to original
but for some uses 2D is good here I could check if 'Deviator' works ;)

Two years ago, my father was diagnosed with acute myeloid leukemia (AML). The prognosis was not good, and most hospitals refused to accept him for a bone marrow transplant.

This single-cell paper has no UMAPs. Instead, it's main results are in the form of several small tables. Because those are the results for any single-cell RNA-seq experiment.

Candidate drug targets with #scRNAseq support defined as

👉cell type specific expression in disease-relevant tissue
OR
👉cell type specific over-expression in disease patients

are more likely to successfully advance from research to clinic

medrxiv.org/content/10.110…

Immunologists should make a UMAP of T cells with 36 clusters highlighted on it their mascot with the phrase “beware all ye who venture beyond this point for there be dragons” their motto 🤣🤣

Cool! Good to see third-parties validating the approach we adopted for Open-ST several months ago.

Gotta love progress.