I wonder if the first time you see semi-structured variation in real data when you need to analyze it (as opposed to nicely curated data used for eduction), imprints you to think of this variation as "the batch effect"

Overview of the reporter genes and reporter mouse models Reporter genes are widely applied in biotechnology and biomedical research owning to their easy observation and lack of toxicity. Taking advantage of the reporter genes in conjunction with imaging te...

Overview of the reporter genes and reporter mouse models - onlinelibrary.wiley.com/doi/10.1002/...

Allelic exclusion of immunoglobulin genes: models and mechanisms Summary: The allelic exclusion of immunoglobulin (Ig) genes is one of the most evolutionarily conserved features of the adaptive immune system and underlies the monospecificity of B cells. While muc...

Allelic exclusion of immunoglobulin genes: models and mechanisms - doi.org/10.1111/j.16...

When Baz Luhrman had the guns say "sword" on the side in Romeo + Juliet, that was the best choice that has been made in any modern adaptation ever.

i am basically always thinking about the idle thumbs day z episodes when playing this game

The one science reform we can all agree on, but we're too cowardly to do OR: the long overdue forest fire

The one science reform we can all agree on, but we're too cowardly to do - www.experimental-history.com/p/the-one-sc...

Spume & Recollection

Driftmachine: Spume & Recollection - open.spotify.com/album/5qFhCM...

A comprehensive analysis framework for evaluating commercial single-cell RNA sequencing technologies Abstract. This study examined nine prominent commercially available single-cell RNA sequencing (scRNA-seq) kits across four technology groups. Each kit was

A comprehensive analysis framework for evaluating commercial single-cell RNA sequencing technologies - doi.org/10.1093/nar/...

Probing the Feasibility of Single-Cell Fixed RNA Sequencing from FFPE Tissue - doi.org/10.3390/ijms...

Improving SCVI for low-count cells through self-supervised augmentation To improve utility of cells with low UMI counts, I wanted to optimize KL weighting in SCVI models.

Improving SCVI for low-count cells through self-supervised augmentation - www.nxn.se/p/improving-...

Interferons in health and disease The cytokine messenger proteins known as interferons are central to protective immune responses against infections, but they are also involved in inflammatory and autoimmune diseases. This review maps...

Interferons in health and disease - www.cell.com/cell/abstrac...

(IFNs were discovered in the 1950s)

There's a lot of research being published

Home assistant trick: if you have a light switch tied to a wall socket, you can put a smart plug in the socket set to go to 'on' state when it powers on. That 'on' can trigger an event that 1) turns it off and 2) the off state triggers other events like smart bulbs. Now it's a smart button!

The Misuses of the University - Public Books Have the funds that might have trained the next generation of scholars at the nation’s first research university have been blown on ostentatious new buildings?

The Misuses of the University - www.publicbooks.org/the-misuses-...

The Origins of Adjuvants More than a century after the invention of vaccines, a veterinarian stumbled across a technique to boost their efficacy in an unlikely way — by observing wounded horses.

The Origins of Adjuvants - press.asimov.com/articles/adj...

Improving SCVI for low-count cells through self-supervised augmentation www.biorxiv.org/content/10.64898/2026.02...

Chance favors the (theoretically) prepared mind In defense of the role of theory in innovation

Chance favors the (theoretically) prepared mind - arjunrajlab.substack.com/p/chance-fav...

Dr Kareem Carr man: i wish to publish @kareem_carr Jan 21 reviewer 2: your paper is no good man: i'll do anything to improve reviewer 2: it's simple. you must read the work of the great scientist Pagliarini man: *bursts into tears* but i am Pagliarini Andre Pagliarini @apagliar Jan 21 a first: in rejecting an article I submitted to a journal, reviewer 2 noted I failed to engage the work of one Andre Pagliarini Jan 21, 2026 • 3:47 PM UTC

I just thought everyone should see this

Technically DESeq2 is a hierarchical model, but only does two levels (treatment effects partially pool genes). I've used standard multilevel modeling packages for pseudobulks in hierarchical designs at times. They write in the paper that situation may differ for few non-zero effects like gene expr.

Why we (usually) don't have to worry about multiple comparisons Applied researchers often find themselves making statistical inferences in settings that would seem to require multiple comparisons adjustments. We challenge the Type I error paradigm that underlies t...

Why we (usually) don't have to worry about multiple comparisons - arxiv.org/abs/0907.2478

Serverless GPUs for fast TSNE visualization - www.nxn.se/p/serverless...

Life's most important problems Richard Hamming's question applied to the life sciences

Life's most important problems - blog.jck.bio/p/lifes-most...

We predict that the transcript abundance from the gene we are knocking down will (checks notes) decrease - ekernf01.github.io/target_gene_...

The spectrum of inflammatory responses

The spectrum of inflammatory responses - doi.org/10.1126/scie...

Self-aware autocorrelation

Training SCVI - Metal acceleration - www.nxn.se/p/training-s...

Pertpy: a one-stop and performant framework for single-cell perturbation analysis. @lukasheumos.bsky.social @fabiantheis.bsky.social

www.nature.com/articles/s41...

Assessing a Virtual Cell’s utility Hitting 2026 running, I can tell you that the team was asked a lot internally to evaluate and share their opinion on many published approaches on creating virtual cells.

Assessing a Virtual Cell’s utility - blog.turbine.ai/p/assessing-...

PCA is one of those techniques that sounds unreasonable (yeah sure we all want to fit a p-dimensional ellipsoid to our data) but turns out to be a reasonable solution to a wide range of problems.

Also: I do hope stackexchange has been archived, because it is my gen's library of alexandria