Kate Stafford @kastacholamine.bsky.social · 04/03/2025Every so often I google something and the top hits are Reddit threads from 10-15 years ago - which doesn’t seem that long ago, but everything about the slang and typing style and general vibe feels like falling into a time warp. 010
Kate Stafford @kastacholamine.bsky.social · 18/02/2025Am I the only one who always feels like I have to praise the LLM whenever it does a good job? Who's a good boy? Is Claude a good boy? 040
Kate Stafford @kastacholamine.bsky.social · 16/02/2025This! And at the risk of going back to the messaging issue… resist the temptation to speak nonprofitese about it. Yes: “Free eggs from the Democrats” No: “Amplifying the voices of marginalized communities by expanding access to traditional foodways impacted by capitalist climate injustice” 091
Kate Stafford @kastacholamine.bsky.social · 09/02/2025I get wanting to reduce government inefficiency, but starting with foreign aid and biomedical research is crazy. The TSA is right there! 040
Kate Stafford @kastacholamine.bsky.social · 02/02/2025Have to admit I was expecting the “find out” phase of Trump 2.0 to start later than week 2. 040
Reposted by Kate StaffordPat Walters @wpwalters.bsky.social · 23/01/2025Machine Learning in Drug Discovery Resources page updated for 2025. github.com/PatWalters/r...github.comGitHub - PatWalters/resources_2025: Machine Learning in Drug Discovery Resources 2024Machine Learning in Drug Discovery Resources 2024. Contribute to PatWalters/resources_2025 development by creating an account on GitHub. 59328
Kate Stafford @kastacholamine.bsky.social · 21/01/2025I spent a long time building a dataset, finally started training a model on it, and was so relieved to see the loss go down. Maybe the data sucks, maybe the model will suck, but at least I didn’t scramble the labels or make unusable data mud. 020
Kate Stafford @kastacholamine.bsky.social · 20/01/2025If the worst thing that happens in Trump admin 2.0 is that he's super corrupt and scams some crypto bros, we will be getting off easy. In fact we should encourage him to spend as much of his time as possible on crypto. 130
Reposted by Kate StaffordAsh Jogalekar @ashjogalekar.bsky.social · 17/01/2025I have a new blog devoted to medicinal chemistry in which I will mainly focus on classic papers. My first installment describes the design and discovery of the amazing atorvastatin: a triumph of simple modeling, dogged synthesis and leadership decisions medchemash.substack.com/p/classics-i...medchemash.substack.comClassics in Medicinal Chemistry #1: AtorvastatinLipitor 25311
Kate Stafford @kastacholamine.bsky.social · 13/01/2025I think that’s the wrong link? Looks like this one: doi.org/10.26434/che...doi.orgInconsistency of LLMs in Molecular RepresentationsLarge language models (LLMs) have shown promising potential across diverse chemistry tasks, including forward reaction prediction, retrosynthesis, and property prediction. However, their ability to ca... 150
Kate Stafford @kastacholamine.bsky.social · 13/01/2025I accidentally put a cat toy in the washing machine and now the whole laundry pile smells like I used catnip-scented detergent. 140
Kate Stafford @kastacholamine.bsky.social · 13/01/2025Going to a musty basement and turning those big cranks to move the stacks in the library Rewinding a cassette with a pencil Blowing on a video game cartridge even though you kind of suspected it was just a placebo 030
Reposted by Kate StaffordDavid Darmofal @daviddarmofal.bsky.social · 12/01/2025It's like Zuckerberg is doing a Buscemi "Hello fellow Trumpers" gif. 328021
Kate Stafford @kastacholamine.bsky.social · 12/01/2025Fight! Fight! Fight! I'll have to take Elon's side on this one, despite Bannon's doubtlessly sincere DEI concerns. 130
Reposted by Kate StaffordWillow Coyote-Maestas @willowcoyote.bsky.social · 06/01/2025Check out our work, where we discover how receptor GPCR senses pH! We solved a longstanding question by developing foundational GPCR DMS tech dev + structural bio! Led by brilliant PhD student @matthewkhoward.bsky.social and Nick Hoppe w/ @amanglik.bsky.social! www.cell.com/cell/fulltex...cell.comMolecular basis of proton sensing by G protein-coupled receptorsHoward et al. combine mechanistic deep mutational scanning, cryo-EM, and constant-pH molecular dynamics simulations to provide a holistic view of proton activation in human pH-sensitive GPCRs. 36312
Kate Stafford @kastacholamine.bsky.social · 04/01/2025Maybe the problems I give them are too easy, but whenever I ask an LLM to generate some code, the results are fine. No need for super elaborate custom prompts or a ton of back and forth. 050
Kate Stafford @kastacholamine.bsky.social · 02/01/2025lol I would not be surprised if someone in noe complained on nextdoor about this 020
Kate Stafford @kastacholamine.bsky.social · 02/01/2025I’m happy to see more outdoor markets in SF, but come on. If the hours are 3-7pm it is not a “night market”, even in Noe Valley. 180
Kate Stafford @kastacholamine.bsky.social · 29/12/2024Went to a yoga class slightly hungry. By the end I spent the entire shavasana thinking about the burrito I was going to get after class. Mmm, burrito meditation…. 140
Reposted by Kate StaffordJanani Durairaj (Jay) @ninjani.bsky.social · 24/12/2024Here's a year-end update from #PLINDER. It's been really great working on this project and all the other projects that it has kickstarted - the gift that keeps on giving. Happy holidays everyone! www.plinder.sh/blog/updatesplinder.shUpdatesUpdates 03813
Kate Stafford @kastacholamine.bsky.social · 24/12/2024Good thing flight tracker sites exist so you can stress about how the plane assigned to your flight is late two legs before yours. 070
Reposted by Kate StaffordEndpoints News @endpts.com · 17/12/2024Just finding us here? Endpoints News has a starter pack with our journalists so you can follow the team! go.bsky.app/NzDRUhL 2216
Kate Stafford @kastacholamine.bsky.social · 17/12/2024Heh thanks, I think that’s the only one my intended recipient wouldn’t want! 010
Kate Stafford @kastacholamine.bsky.social · 16/12/2024Both cats are in my lap at the same time. That’s 24.5 pounds of cat. That is so much cat. 070
Kate Stafford @kastacholamine.bsky.social · 15/12/2024Do any of the big LLMs do gift subscriptions? Seems like OpenAI is a no. I hope at least one of these companies thought of this before Christmas. 240
Kate Stafford @kastacholamine.bsky.social · 15/12/2024Drinking and climbing without a safety harness? Definitely not OSHA approved 140
Reposted by Kate StaffordDiego del Alamo @delalamo.xyz · 13/12/2024Protenix, the AF3 reproduction made by TikTok's parent company ByteDance, is now available for commercial use with an Apache 2.0 licensegithub.comGitHub - bytedance/Protenix: A trainable PyTorch reproduction of AlphaFold 3.A trainable PyTorch reproduction of AlphaFold 3. Contribute to bytedance/Protenix development by creating an account on GitHub. 0438
Kate Stafford @kastacholamine.bsky.social · 11/12/2024I updated from a super old android phone to a new iPhone and I’m perversely fascinated by how the mix of ads I get has completely changed. Apparently I’m a much higher value customer now, and also willing to pay more for stuff. 030
Kate Stafford @kastacholamine.bsky.social · 09/12/2024and another one from Jain: www.linkedin.com/pulse/more-r...linkedin.comMore response to the response (DiffDock/DiffDock-L)To amplify on what Pat Walters said (quotes from Gabriel Corso's post in italics): It only took a few days (in August 2023) for Ann Cleves, Pat, and me to figure out that the original DiffDock work ha... 010
Kate Stafford @kastacholamine.bsky.social · 09/12/2024Worth reading the response as well: bsky.app/profile/gcor... 120
Kate Stafford @kastacholamine.bsky.social · 08/12/2024Everyone in the anti-aging/lifespan extension space talks about the value of sleep and advises getting more. As much as I enjoy sleeping, reducing sleep needs would get you so much more actual life in your existing lifespan. 120
Kate Stafford @kastacholamine.bsky.social · 07/12/2024Ha, that's great. They talk by flapping their meat at each other. And sometimes by poking keyboards with their meat hands! 020
Kate Stafford @kastacholamine.bsky.social · 07/12/2024Somewhere there's a bunch of silicon-based life forms talking about how carbon-based meatware is fine for eating and reproducing, but a few pounds of low-energy jello is inherently incapable of reasoning and can't possibly scale enough for consciousness no matter how interconnected it gets. 3100
Kate Stafford @kastacholamine.bsky.social · 06/12/2024Spicy! Good points on benchmarks and splits. When I read it I thought, if you're going to be that spicy you need a figure 8 showing how "competently run" docking does on the hard set from figure 7. 140
Kate Stafford @kastacholamine.bsky.social · 04/12/2024I just tried this and it worked the first time with no setup fuss or dependency annoyances or anything, just did exactly what the docs said it would do. That's so rare I have to celebrate it! 1101
Reposted by Kate StaffordKevin K. Yang 楊凱筌 @kevinkaichuang.bsky.social · 03/12/2024Three BioML starter packs now! Pack 1: go.bsky.app/2VWBcCd Pack 2: go.bsky.app/Bw84Hmc Pack 3: go.bsky.app/NAKYUok DM if you want to be included (or nominate people who should be!) 1615258
Kate Stafford @kastacholamine.bsky.social · 03/12/2024Disappointing :( I've been a little underwhelmed with Gemini integration in Android and wondered if Apple did any better 000
Kate Stafford @kastacholamine.bsky.social · 02/12/2024Is apple intelligence good? I never hear anyone talk about it other than to post funny mistakes in summarizing someone's texts 100
Reposted by Kate StaffordBrian Naughton @btnaughton.bsky.social · 30/11/2024New blogpost: The ABCs of Alphafold 3, Boltz and Chai-1 blog.booleanbiotech.com/alphafold3-b...blog.booleanbiotech.comBoolean Biotech 911536
Reposted by Kate StaffordOlexandr Isayev 🇺🇦 🇺🇸 @olexandr.bsky.social · 30/11/2024Proudly over one year (!!) under review. @chemrxiv.bsky.social preprint: "AIMNet2: A Neural Network Potential to Meet your Neutral, Charged, Organic, and Elemental-Organic Needs". Loooong time in the works...so excited to share this with #compchem #chemsky chemrxiv.org/engage/chemr... 512420
Kate Stafford @kastacholamine.bsky.social · 29/11/2024It's a little3 hard to disagree with people who say the vibe is off around here when there's a parade of posts being performatively shocked that someone downloaded some public data from this website and put it on a different website. 010
Kate Stafford @kastacholamine.bsky.social · 29/11/2024Wouldn't go quite that far but mashed potatoes are definitely a good butter/salt/garlic vehicle 000
Kate Stafford @kastacholamine.bsky.social · 29/11/2024Sounds easy and tasty! Chocolate +/- PB is a top tier pie, fall or any other time. 000
Kate Stafford @kastacholamine.bsky.social · 29/11/2024Ooooh those look yummy. Is that front one chocolate? 100
Kate Stafford @kastacholamine.bsky.social · 29/11/2024My worst Thanksgiving take: I don't really like either pumpkin or pecan pie. Apple is the clearly superior fall pie. 360
Kate Stafford @kastacholamine.bsky.social · 28/11/2024Come to think of it: I've never seen a woman driving a cybertruck. Not even sure I've seen a woman as a passenger. 110
Kate Stafford @kastacholamine.bsky.social · 27/11/2024I actually kind of like the look of the cybertruck (yes, I'm aware I have terrible taste) but seeing them try to do normal car things is so goofy. I'm watching one attempt to parallel park right now and doing my best to pretend I'm laughing at something on my phone and not this guy's parking job. 230