Rory Kirchner

How population stratification makes environments look like genes. A short 🧵:

Check out this systematic benchmark of genome-wide, annotation agnostic DNALMs & strong baseline ab-initio models for biologically meaningful tasks in regulatory genomics 1/

I’m so surprised this isn’t widely done still.

We also revealed that the use of MALAT1 expression as a surrogate for nuclear content is a promising solution, particularly when raw intronic data is unavailable.
5/8

High content of nuclei-free low-quality cells in reference single-cell atlases: a call for more stringent quality control using nuclear fraction - BMC Genomics The advent of droplet-based single-cell RNA-sequencing (scRNA-seq) has dramatically increased data throughput, enabling the release of a diverse array of tissue cell atlases to the public. However, we...

Not checking nuclear markers like MALAT1 or intronic reads in your scRNA-seq data?🚨
We show their power to flag low-quality cells—even in top public datasets. It’s time to prioritize better QC for cleaner, more reliable genomics research!
Read more: bmcgenomics.biomedcentral.com/articles/10....
1/8

Add me please, thank you for this resource!

So glad a large portion of my Twitter science crew has relocated to Bluesky.

You forgot to add Nature/Science/Cell before that. Without that prefix the journal is worthless.

Journal of Irreproducible Results - 👎🤮

Nature Journal of Irreproducible Results - 👍🤩

now I've heard there was a secret

beastie boys: CHORD

that david played and it pleased the

beastie boys: LORD

but you don't really care for music

beastie boys: DO YA