Mark

Are you a biologist working with microscopy images? A computer scientist wanting to work with microscopy data? Their boss??? None of these, but curious how AI has transformed microscopy image analysis? 🔬🤖 This one's for you: 📄 doi.org/10.1146/annu... More in the thread! 🧵

The US President's new proposal to tax international students has been approved by the White House for release this week. It's an unprecedented $100,000 tax on int'l grads who stay to work after graduation on Optional Practical Training (most grads do), a crucial bridge to remaining by any channel.

Visualising the distribution of substrings in the genomes of different organisms. Going up to depth eight by recursively splitting into quadrants, we get these fractal-like pictures.

Our work on systematic perturb-seq of primary human T cells is now out in Cell 🎉 www.cell.com/cell/fulltex... It's been a privilege to work with @ronghuizhu.bsky.social between @jkpritch.bsky.social @marsonlab.bsky.social labs, with a dream-team of co-authors ❤️ Highlights in preprint thread👇

I made an R package that creates oncoplots, lollipop plots, rainfall plots, and GISTIC plots with basic interactivity such as tooltips and zooming. It's almost a drop-in replacement for the corresponding maftools' plotting functions.

Malva out in Nature! 🚀 RNA sequences make cells different from each other. Single-cell data captures much of this, but most stays in the dark because we reduce it to gene counts. We introduce Malva to make the world's single-cell data searchable. What took days is now one query in seconds.

I'm gonna do a quad-state theme toggle just you wait

We're excited to share our new preprint, Celldega: Integrated Toolkit for Visualization and Analysis of Spatial Data! Celldega is an open-source framework that tightly couples scalable, interactive visualization (>1M cells and >1B transcripts) with spatial-omics analysis #Xenium #StrataMap #Atera

I wrote a blog post, “Beyond the Demo: Building Visualization Research Software That Lasts”, based on a keynote I gave at VisGap at EuroVis in Nottingham last month. It reflects on what it takes to build visualization software that survives beyond the paper. www.visdesignlab.net/blog/2026/07...

Sotomayor, joined by Kagan and Jackson, issues a 17-page dissent to the 4-page order: "[J]ust as Alabama doubled down on racial discrimination, the Court today doubles down on chaos."

InterScale reveals multi-scale cellular interaction programs in spatial transcriptomics https://www.biorxiv.org/content/10.64898/2026.05.07.723456v1

new zealander everlee wihongi was due to meet with her lawyer yesterday. then ICE moved her to their most notorious tent facility in texas: 3000 people, highest death rate, most sexual assaults. and today, she disappeared off the system. please RT: www.webworm.co/everleehasdi...

The CDC is really is no where to be found because of its deliberate destruction. You CDC cruise ship inspectors were laid off in April 2025. No surprise it has been crickets from HHS and CDC leadership on the situation with the Hanta virus cruise ship situation. www.cbsnews.com/news/cdc-cru...

Don't be shy to take on a little two-week side project. These five months will be the most precious three years of your academic journey.

Our PhD student Kennedy Orwa, who studies applications of AI to health care, was hastily deported today to Kenya along with his 13-year-old son without opportunity to speak to legal counsel. King 5 reports that he held a valid visa that was rescinded without explanation.

Completely unstable and perilous. The House must bring up impeachment articles, and the Senate needs to remove a president who wants to commit war crimes. We cannot sit idly by as Donald Trump threatens to end an entire civilization.

If you have ever been confused about these terms/concepts, @dvdkouril.xyz digs into their origins and provides a helpful survey!

The Orange Cat Brain Atlas is here. 🧠🐈 Today, we published the first comprehensive cellular map of the orange cat brain. The new atlas reveals a single, specialized neuron responsible for behaviors like staring at walls, knocking objects off tables, and the 3am "zoomies."

It's not just in New Albany. More than half of the gas plants being built to serve data centers will be off grid, according to data from @globalenergymon.bsky.social. Gift link: www.nytimes.com/interactive/...

NYT feature on their website's front page about our local C. elegans colleague Will Mair and NIH funding www.nytimes.com/2026/03/13/u...

When D3 was released in February 2011, it transformed how we build data visualizations for the web and ushered in a new age of unbridled creativity in information design, data journalism, and beyond. Today, it remains the backbone of modern, interactive data viz. Happy 15th birthday, D3 🎂 d3js.org

DHS is holding a 2-month-old BABY at a detention facility in Texas. Last night, Juan Nicolás was rushed to the hospital after choking on his own vomit & being unable to breathe. This demands accountability — not a blank check for more cruelty.

The FDA has refused to accept an application from Moderna to review its first mRNA seasonal flu vaccine, the company said, in another setback for the technology that’s been a target of some Trump administration health officials. https://cnn.it/4kt8iyn

v1.116 is rolling out now! For all the overthinkers and perfectionists out there, we're launching Drafts.

ICE has now spent over half a BILLION dollars just on purchasing warehouses around the country to convert into detention camps. If these mega-camps are utilized to the full capacity ICE intends, they'll be the largest prisons in the country, with little real oversight. www.ajc.com/politics/202...

A man taken into custody in Rochester Thursday by federal immigration agents and now held at the Whipple Federal Building in the Twin Cities is a recent organ transplant recipient who is without his needed anti-rejection medication, state Rep. Kim Hicks tells MPR News.

The new updates for Charles McAnany’s preprint “Positional Interpretation of Cis-Regulatory Code and Nucleosome Organization with Deep Learning Models” (www.biorxiv.org/content/10.1...) are up! We introduce PISA, a tool to visualize the cis-regulatory code. See a recap below:

First ai ruined dashes, now it has also ruined UIs with gradients and rectangular divs with lots of padding and large corner radii

Been calling senators/reps offices a lot lately but just had a real human staffer pick up for the first time to listen to my comment. This tells me their lines are not busy enough! Fill up their voicemails!

It’s -9 degrees. Downtown Minneapolis is packed for the anti-ICE rally and the crowd keeps growing

Any one of these daily atrocities should result in a full congressional investigation and a disbanding of the agency. The fact that it’s all just shrugged off by those with the power to stop it is a national disgrace.

Wrote a summary of a great keynote by @zey.bsky.social at NeurIPS, arguing that we’re having the wrong nightmares about AI: not AGI or superhuman benchmarks, but good-enough genAI at scale threatens "load bearing frictions" society relies on to signal effort, authenticity, sincerity, credibility.

The Congressional Progressive Caucus, a group of nearly 100 House Democrats, will announce later today that it's formally endorsing legislation to strip $175 billion from ICE and put it toward affordable housing. www.huffpost.com/entry/doj-fe...

Today at 34 & Park in Minneapolis, a woman tried to drive down the street where a protest had broken out in front of a home ICE was raiding, saying she had a doctor apt to get to. ICE agents busted out her windows, cut off her seatbelt, and pulled her out before arresting her.

Introducing VoxCSS: a DOM based voxel engine github.com/LayoutitStud...

A video of ICE agents conducting door-to-door searches today in Minneapolis The homeowner requests a warrant repeatedly, is told they don't require one, then is told they're getting it, then the agents storm in anyway They also point a taser at her to try and disrupt filming

🔬 pertpy: a unified, scalable framework for single-cell perturbation analysis, now out in Nature Methods Designed for modern perturbation data - CRISPR, drug screens, patient treatments - scaling to millions of cells and 1000s of conditions. 👉 www.nature.com/articles/s41...

A new paper from Stanford adds further, incontrovertible evidence that LLMs memorize training data. The authors showed that copyrighted works can be extracted from every LLM they tried: GPT-4.1, Gemini 2.5 Pro, Grok 3, and Claude 3.7 Sonnet. 🧵 1/3 arxiv.org/pdf/2601.026...

Too lazy for 2 clicks, here you go: tonsky.me/blog/tahoe-i...

🎉 New year, NEW PREPRINT! Bacteria exhibit astonishing genetic diversity, but where do new genes come from? My best friend Arya Kaul (/labmate in the @baym lab) investigates how advantageous deletions can spawn new genes - "deletion-born fusions." 🧵:

7/ Here's the bottom line: This is an unprecedented shift that risks weakening protection against preventable diseases at a time when outbreaks are rising and children are already being hospitalized. Vaccines don’t work without strong supporting systems...and the U.S. doesn’t have Denmark’s.

Hello moths, The harvest has arrived: anisota.net/harvest It's like Spotify Wrapped, but for Bluesky and the ATmosphere. 🌾 See your most-used words, discover who you interact with most, explore your posting patterns, and find all sorts of fun insights.

New record year for renewable electricity in Britain - thanks especially to strong solar output. Read our analysis of 2025 here www.bbc.co.uk/news/article...