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Bede Portz
18K posts
Bede Portz
@YSPTSPS
Biotech. Interests: oncology, transcription factors, RNA, biomolecular condensates, RNA-binding proteins, neurodegeneration, aggregation, disordered proteins
Boston Katılım Ağustos 2015
5.3K Takip Edilen4.9K Takipçiler
Bede Portz retweetledi
Unstructured transcription factor interactions enable emergent specificity | @ScienceMagazine science.org/doi/10.1126/sc…
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Bede Portz retweetledi
Synthetic biology is like programming on an alien computer where you only have “coding language rules” that you’ve learned by typing stuff in and seeing what happens. Top down knowledge attempting bottoms up design.
Yeah…it’s hard. AI will change this.
Parmita Mishra@parmita
There's an old joke in systems biology called "How Biologists Fix a Radio." A biologist, tasked with figuring out why a radio doesn't work, removes components one by one and catalogs the result. Remove this transistor: the radio makes a horrible screeching sound. Conclusion: this is the "horrible screeching transistor." Remove another component: the radio goes silent. Conclusion: this is the "silence transistor." This is essentially what we do with genomics. We see which genes are mutated in cancer and assume they must be "cancer genes." We see which genes are differentially expressed and assume they must be "important." But correlation is not causation, and a parts list is not a circuit diagram. You can have a complete inventory of every resistor, capacitor, and transistor in a radio and still have no idea how it plays music.
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@aliceyting @anshulkundaje I’ve never seen that canyon going through campus before.
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We are recruiting! If you are passionate about technology development, protein engineering, computational design, directed evolution, chemical biology - please reach out!
(The setting is pretty nice too…)
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@fiddle @YSPTSPS @openclaw @nlw I’m working on building in long term memory so it learns my preferences. It’s the agent I ping though the day with notes, reminders, ideas etc. so it can help me manage them. The I have a version of heartbeat for my agent hun to keep the background in check. And my tokens :)
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It was my birthday a couple of weeks ago so I bought myself a Mac mini and installed @openclaw Meet Tessera!
If you’re wondering what a “normie” genetics professor is doing with it or want tips to get started, ask 👇 !
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Bede Portz retweetledi
Surprises me *not at all* that the generative lack a scarcity mindset around protecting their ideas. It’s hard enough to get important shit done when you shout it from the rooftops and invite the contributions of other mission-aligned, creative, ambitious, hyper-competent folks. The cagey have zero chance
Niko McCarty.@NikoMcCarty
When I launched the "Fast Biology Bounties" (on a whim) with $10,000 in prizes, people told me that I would not get any ideas because people wouldn't want to share them, or all the good ideas were already being developed, etc. This is definitely not true. I've gotten >400 submissions and at least 20 really creative, original, tractable ideas. Many of the best ideas came from people who are *super generative*, meaning they sent me multiple ideas, most of which were good. And when I asked them if it's OK for me to share their ideas, they almost always said "yes." Ideas are cheap, in other words. Smart people tend to have lots of them, and are bottlenecked by time and resources to execute. I guess I already knew this, but now I have much more evidence for it. I don't know if I'll do one of these bounties again. If ideas are truly cheap and execution is the bottleneck, then perhaps I should just give grants to people who already have a good idea but need a $5-$20k grant to reach a technical milestone. I'll start sending out some of the best ideas I received on my blog. A deeper retrospective quantifying everything I learned is also coming soon at nikomc.com //
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@fiddle @YSPTSPS @openclaw Honestly clawcamp from AI daily brief and @nlw is a great hands on how to. Lean into your build coach (e.g., an agent tailored to how you want to build) to get you started. Use a powerhouse model like opus to get you going. And don’t forget tailscale! campclaw.ai
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Sen. Markey (D-Mass.) tells me outside the Capitol he doesn’t know who Vinay Prasad is and would need to be briefed by staff to respond to questions on the FDA
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Bede Portz retweetledi
Check out the newest paper from our lab, by the great
@jordybotello Such an awesome discovery that the ribosome population undergoes molecular aging!!!!
Jordy F. Botello@JordyBotello
Some molecular machines, like ribosomes, persist for long periods in cells Could molecular aging of ribosomes shape how proteins are made? In our preprint we track ribosomes as they age in cells and uncover unexpected effects on translation (1/10) biorxiv.org/content/10.648…
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Bede Portz retweetledi
Woohoo!!!! 🎉🎉🎉
The next Vertex! @srikosuri should be leading a major pharma. Easiest way is just to build a new one. Watch it 👇
Sri Kosuri@srikosuri
First in Human! When @rhomsany and I first started Octant, this was the dream. A platform that makes molecules that few others can go after… to get the chance to tackle severe diseases with poor to no standard of care. It's been a long journey but so incredibly proud of the team and thankful to the volunteers who make this attempt possible. We got to celebrate with these new sunhats! octant.bio/news/octant-an…
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A raw egg rolled off the counter while cooking tonight and my dog ate it, shell and all. He spent the next 15 minutes excitedly walking laps around the kitchen island hoping to find another.
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@davidycli I could probably think of several hundred applications for AI in biotech that would be more useful than 3D fever dream assay flowschemes
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this is coming for drug discovery R&D workflows ... and I can't wait
Adam KP@AdamKPx
This is what learning looks like in spatial computing 👀
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Jeep Wrangler Willys 392 hemi with 1536 well plate high content image screen in high grade serous ovarian cancer cells get it now
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@jrkelly just launched the midlife crisis jeep wrangler build and price tool but for science newco ideas. I have a new hobby....
Jason Kelly@jrkelly
Try our Estimate agent to get a ballpark on what it would cost to run your favorite protocol on Ginkgo Cloud Lab! It's pretty fun to play with. cloud.ginkgo.bio/protocols
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Elite traits are everywhere for those with eyes to see.
✨🌿cyber plantae🌿✨ ∿@cyber_plantae
haters will say it’s fake but this lettuce volunteer survived 2 major snowstorms and regularly gets run over by my car. i WILL be collecting its seeds as i seem to have cultivated The Strongest Lettuce In The World
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@srikosuri @eLife I like this more than simply posting the preprint because it welcomes feedback that is transparent. That further legitimizes the work, arguably to an extent beyond the closed and cursory peer review of some of the ~industry journals without diminishing returns of glam/glam-lite
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@YSPTSPS @eLife Yeah, it's our second one actually. This one we actually did more of the suggestions because they were easy. elifesciences.org/reviewed-prepr…
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I am loving these reviewed preprints in @eLife. Especially in a company, it's great to put stuff out that we've worked on into the world, but often times we really don't want to do a bunch more work; we moved on, and we just get to say... nah. elifesciences.org/reviewed-prepr…
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