This is super cool. Proteins as templates for DNA synthesis. Goes to show how biology confounds are best efforts to apply rigid dogmas!!
Protein-templated synthesis of dinucleotide repeat DNA by an antiphage reverse transcriptase | Science www.science.org/doi/10.1126/...
Cool paper showing a new moonlighting function of iNOS in macrophages! It apparently binds IRG1 in the mitochondria and NO-independently regulates itaconate production!! Pretty cool stuff!
Need to dive into the details but curious if it holds in human macs!
www.nature.com/articles/s42...
Wow!
We integrate H&E and IHC sections (CODA) to generate 3D immune maps of tumors and precancerous lesions in the human pancreas.
CODA allows to map very large volumes of tumors at single-cell resolution.
More here: www.cell.com/cell-press-b...
Watch this great video that Dr. Ashley Kiemen has made.
It shows how we use AI to map individual immune cells in the vicinity of precancerous lesions of the human pancreas (PanINs).
More here: www.cell.com/cell-press-b...
This is my favorite climate change chart. Japanese monks, aristocrats, and emperors kept meticulous records of cherry blossom festivals for 1,200 years and accidentally built the world's longest climate dataset.
![1 [Nurse talking to camera]
This is usually our busiest time of year at the centre
2 [Show a sign outside a medical institution reading:]
Centre for Adults Who Still Can’t Get Their Heads Round Daylight Savings
3
NURSE:
We have a spike in admissions when BST starts
4
CONFUSED PATIENT BEING LAID DOWN BY NURSES:
Is it forward or back?
NURSE:
Lie down love
5
We often see the same patients ever year
PATIENT:
So it’s like… time travel?
DOCTOR:
No
6 Every year we try to explain BST to them in a fun and memorable way
[The patients are sat around a fun show, with people dressed in bunny suits jumping around a giant clock]
BUNNY: And now I *spring forward*...
7
[Bunny springs forward one hour on clock]
8
PATIENT WATCHING SHOW:
I don’t get it
9
The hardest patients are the Summer Time refusers
10 PATIENT [sat strapped to a chair as a doctor talks to him through a screen, through a tannoy]
PATIENT: But why is it better?
DOCTOR [talking through microphone]:
Because it complicates things.
11
PATIENT:
How is that good?
DOCTOR:
It makes you more tired.
12
DOCTOR [to assistant]:
Fetch the cattle prod
[Ends]](https://cdn.bsky.app/img/feed_thumbnail/plain/did:plc:4m3we4apbjayclzcnhwe3pfp/bafkreig3ajb2wja3a6grndpmpunqogqdeg52wtkr2gpxqng6gx47ixpgee)
1 [Nurse talking to camera] This is usually our busiest time of year at the centre 2 [Show a sign outside a medical institution reading:] Centre for Adults Who Still Can’t Get Their Heads Round Daylight Savings 3 NURSE: We have a spike in admissions when BST starts 4 CONFUSED PATIENT BEING LAID DOWN BY NURSES: Is it forward or back? NURSE: Lie down love 5 We often see the same patients ever year PATIENT: So it’s like… time travel? DOCTOR: No 6 Every year we try to explain BST to them in a fun and memorable way [The patients are sat around a fun show, with people dressed in bunny suits jumping around a giant clock] BUNNY: And now I *spring forward*... 7 [Bunny springs forward one hour on clock] 8 PATIENT WATCHING SHOW: I don’t get it 9 The hardest patients are the Summer Time refusers 10 PATIENT [sat strapped to a chair as a doctor talks to him through a screen, through a tannoy] PATIENT: But why is it better? DOCTOR [talking through microphone]: Because it complicates things. 11 PATIENT: How is that good? DOCTOR: It makes you more tired. 12 DOCTOR [to assistant]: Fetch the cattle prod [Ends]
I think the clocks in UK go back tonight. Or forward. Not sure. Is it forward
A new pre-print from the lab!!!
Check out SpotGraphs a simple little R package to explore spatial transcriptomics data using graph tools!
www.biorxiv.org/content/10.6...
New Perspective form Rory Maizels & me: "Gene regulatory networks: from correlative models to causal explanations"
Gene regulatory networks are supposed to give us mechanistic explanations of development, so why are we drowning in 'hairballs' of statistical correlations?
rdcu.be/e7zx7
Context is everything in metabolism! This super elegant study on how hexokinase isoforms are conditionally essential depending on culture media and mitochondrial association highlights how much we need to work towards methods that let us probe these phenomena in vivo!
rdcu.be/e3xOV
Metabolic control of immune cells impacts every aspect of their function. We show that monocytes transitioning to tissue resident macrophages need DHPS, otherwise monocytes are stalled in an immature state.
Super excited to see this story published after a ton of work!
rdcu.be/e3wKe
This is so cool!! Amazing work expanding single cell metabolomics to thousands of metabolites and hundreds of thousands of cells! Shame you need a custom built mass cytometer to do this 🥲 but hopefully someone is on this to make it widely accessible!
Looking forward to reading this!! Always fascinating how cells fine tune responses to common cytokines.
Holy smokes
I've seen some cool gesture-based point cloud controllers.
So I noted the JS libraries used and vibe coded a similar web app to explore the relationship between spatial, UMAP, and PCA embeddings for spatial transcriptomics data. Next level interactivity via 🖐️
Try it out: jef.works/GestureGraph/
All models are wrong, and yours is useless
www.nature.com/articles/s41...
Super proud of Andrei Dorobantu who was named a @society4science.bsky.social #RegeneronSTS scholar for work that he performed in my lab. Only 300 young scientists are selected for this honor. bit.ly/4j6k8Oe
Newfound disappointment: receiving shallow peer reviews that are entirely AI-generated.
The whole point is critical feedback from YOU as a real expert. If reviewers are outsourcing to AI, I think we've lost the plot 🤷♀️
As an editor, I'm definitely keeping better track of reviewers I can trust...
Join us in advancing data science and AI research! The Johns Hopkins Data Science and AI Institute Postdoctoral Fellowship Program is now accepting applications for the 2026–2027 academic year. Apply now! Deadline: Jan 23, 2026. Details and apply: apply.interfolio.com/179059
🚀 New preprint!
The Human Cytokine Dictionary - 9.7M cells, 12 donors, 90 cytokines - our largest human single-cell perturbation atlas yet. Users can map cytokine activity in their own data. Huge thanks to Lukas, Sören, Larsen, Parse Bio & Seelig lab!
🔗 www.biorxiv.org/content/10.6...
Hot from the presses!
Laura Sena's @laurasenamd.bsky.social team at at Johns Hopkins working hard to expand the toolkit to treat patients with prostate cancer! Super excited to see out:
doi.org/10.1158/0008...
This study was made possible by the support of the PCF @pcf-science.bsky.social
This study was only made possible with the incredible support of the Prostate Cancer Foundation @pcf-science.bsky.social
Excited to dig into this!!!
The Social Security Administration wants to share your data with the Department of Homeland Security. You might have something to say about that, and if you do, comment here:
www.federalregister.gov/documents/2025/11/12/202...
Just tried q.e.d. by @odedrechavi.bsky.social et al. with a few papers including by myself & others where I knew a claim within was flawed based on a misunderstanding of the signal.
1) it was impressive. I see what the hype is about.
2) it hallucinated.
www.qedscience.com
Overly long #SciPub🧵 1/n
I love this tool and recommend it to anyone working with single cell data!
This work is the first publication from my lab and I could not be more proud!!!!
/end
