Milo Johnson

390 posts

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Milo Johnson

Milo Johnson

@_miloj

Postdoc at Berkeley with @bkoskella, @AdamArkinLab, and Adam Deutschbauer, working to measure/predict the effects of mutations in microbes he/him

Katılım Mart 2016
533 Takip Edilen286 Takipçiler
Milo Johnson retweetledi
Kepler Mears
Kepler Mears@KeplerMears·
What is the best strategy to win any contest? Eliminate your opponents of course. Recently, my colleague @fernpizza showed how plasmids compete intracellularly (check out his paper just published in Science today!). Together with @baym, we now know how they can fight.
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Milo Johnson
Milo Johnson@_miloj·
Excited to share pt 2 of my blog on genotype-phenotype maps! We are good at predicting protein sequence->structure. How did it happen? Why was it possible? Can we make similar predictions for protein function, whole-cell phenotypes, or community function open.substack.com/pub/topossibil…
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Supreet Saini
Supreet Saini@SupreetSaini13·
Curious about how evolution takes place? Are you looking for a "first-course" in the subject? My book, Fundamentals of Evolutionary Biology (CRC Press), takes a microbe-first approach and explains how molecular and cellular processes drive evolution.
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Milo Johnson
Milo Johnson@_miloj·
Also I'm miloj over on blue sky, there more often these days!
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Milo Johnson
Milo Johnson@_miloj·
I'm very excited to share something I've been working on off-and-on for a long time now: a new blog about genotype-phenotype landscapes! The first post is a Gödel-Escher-Bach-style dialogue to introduce the topic. If you like it please share/repost! open.substack.com/pub/topossibil…
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Milo Johnson
Milo Johnson@_miloj·
And also also shout out to @bkoskella for making RaMP happen and advising on this project!
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Milo Johnson
Milo Johnson@_miloj·
Also I'm @ miloj on bsky!
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Milo Johnson
Milo Johnson@_miloj·
Know any recent or upcoming college graduates who are looking for a (full-time&paid!) microbio research experience? Point them towards RaMP! @darian_doakes and I are co-mentors for an MGE project that I think is going to be really cool. Apps+recs by 5/25 sites.google.com/berkeley.edu/r…
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Nishant Jha
Nishant Jha@parambulat0r·
Making custom Jupyter widgets with React is surprisingly straightforward 🐍❤️🌐 1) Build React component 2) `npm run dev` and `jupyter lab` 3) Use anywidget to bridge Python/JS
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Milo Johnson
Milo Johnson@_miloj·
@PetrovADmitri @skryazhi It also could be important that the backgrounds are from a cross (so maybe gene regulation is very non-optimal) - again really speculating wildly here, but I think that is one possible form of specificity of these results.
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Milo Johnson
Milo Johnson@_miloj·
@PetrovADmitri @skryazhi To tack onto what Sergey said with some wild speculation: maybe in the really really slow growing strain/env combos, just not expressing any nonessential gene is likely to be beneficial. I don't know enough about cell biology to know how reasonable that sounds, but it's an idea.
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Sergey Kryazhimskiy 🇺🇦
It looks like I never posted anything (*but see below) on what are probably the most surprising results my lab obtained so far. Anyway, this work—led by an outstanding former PhD student Sarah Ardell in collaboration with @_miloj—is now published: science.org/doi/10.1126/sc…
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Milo Johnson
Milo Johnson@_miloj·
A little late to the party, but I'm really excited to see this work out from Sarah Ardell, Alena Martsul, and Sergey Kryazhimskiy over at UCSD, with some help from me from afar. Sergey's thread goes over the main results. Here's why I think they are fun to think about:
Sergey Kryazhimskiy 🇺🇦@skryazhi

It looks like I never posted anything (*but see below) on what are probably the most surprising results my lab obtained so far. Anyway, this work—led by an outstanding former PhD student Sarah Ardell in collaboration with @_miloj—is now published: science.org/doi/10.1126/sc…

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María Rebolleda
María Rebolleda@MRebolleda·
This is an incredible paper; if you care about fitness effects and epistasis, you cannot miss this one! If you know anything about @skryazhi you'll know this paper is careful, creative, and insightful! Sarah and @_miloj are also brilliant and incredibly nice! Congratulations!!!
Sergey Kryazhimskiy 🇺🇦@skryazhi

It looks like I never posted anything (*but see below) on what are probably the most surprising results my lab obtained so far. Anyway, this work—led by an outstanding former PhD student Sarah Ardell in collaboration with @_miloj—is now published: science.org/doi/10.1126/sc…

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Milo Johnson
Milo Johnson@_miloj·
(I don't think Sarah and Alena are on here, but I'll tag @skryazhi because I forgot to above)
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Milo Johnson
Milo Johnson@_miloj·
Major thanks to Alena for leading the experimental work on this, to Sarah for leading the analysis, and to Sarah and Sergey for carefully pulling it all together, writing, etc.!
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