Great new postdoc fellowship for foundational plant research. If you’re into genetics and genomics of plant reproductive evolution or adaptive convergence (incl in the cool and charismatic nightshades!) I’d be happy to talk about possible projects! www.simonsfoundation.org/grant/simons...

Thrilled to announce our new preprint, “Protein Hunter: Exploiting Structure Hallucination within Diffusion for Protein Design,” in collaboration with @Griffin, @GBhardwaj8 and @sokrypton.org 🧬Code and notebooks will be released by the end of this week. 🎧Golden- Kpop Demon Hunters

Out First Release in @science.org this week: The development of a directed evolution strategy with proof of concept in plant immune protein engineering. www.science.org/doi/10.1126/...

Yesterday the president demanded that evidence about Covid vaccines be shown to the public. Today @apoorvanyt.bsky.social & I run through some of the studies made public over the past 4+ years that show that the vaccines work. Gift link: nyti.ms/46k17Tq

I feel this open.substack.com/pub/experime...

Interested in doing a postdoc at DFCI/Harvard on computationally designing and experimentally characterizing mini-protein binders for biomedical applications? Eric Fischer and I are looking for someone to work in our groups starting asap! Email me or my admin with a CV to apply!

Introducing the 1,000 Flower Collection 🧬🌹 I’m creating 1,000 genetically designed flowers each crafted with new colors, patterns, and shapes. Here’s how I’m making it happen… and how you can join me on this journey 🧵(1/7)

Very excited to present the Great Barrier Reef Microbial Genomes Database (GBR-MGD), a comprehensive DB of 1000s of high-quality prokaryote, virus, plasmid, and chromosome-level eukaryote MAGs using Nanopore long reads. Subthreads incoming. Please share widely. 🙂 www.biorxiv.org/content/10.1...

We are looking to hire (yes, even in this economy!) a jr. specialist to train in protein prep/structural biology related to our AVOID-ome work as part of openadmet.org. A great position for someone who is looking to be a tech for a few years before grad or med school. aprecruit.ucsf.edu/JPF05424

Definitely one of my favorite things to learn recently: sweet proteins! And that companies like Oobli and Amai already exist

I remember having a drunken argument with @boughter.bsky.social over whether you focus efforts on exploring the earth's oceans or space first and I feel somewhat validated by this 😅 www.science.org/doi/10.1126/...

Always a good day when I find out a new sensory receptor structure has been published! www.cell.com/cell/fulltex...

Super excited to share a new preprint from our lab on design of small-molecule binding proteins using neural networks! The paper has a bit of everything. A new graph neural network, new design algorithms, and experimental validation. www.biorxiv.org/content/10.1... 🧵🧪

On the ancestry and evolution of the extinct dire wolf 🐺 www.biorxiv.org/content/10.1... 🧬🖥️🧪 Sequencing data: www.ncbi.nlm.nih.gov/bioproject/P...

What a joke.

Some glimmers of hope (but mostly confusion) this morning. I have heard that no intramural tenure track investigators were supposed to be on the termination list although some folks clearly got termination notices. I am actively checking into this every way I can. 1/2

Thanks to all of the NIHers and their friends who reached out to me. I am still here (DM me or Signal jeremymberg.78) I still have a very incomplete picture but based on what I have been told, the damage to NIH and to many wonderful people who work(ed) there is/was impossible for me to imagine 1/n

This feels not only pertinent to me personally, but also to the current happenings in the federal government. But I’m trying to figure out: is the current administration viewing the government as a strong or weak link problem? www.experimental-history.com/p/repost-sci...

If you have been affected by the fires in LA, or are concerned about your ability to keep precious Drosophila strains going during the latest funding crisis, we will host your strains as a backup. Please email me. Please amplify. If you are also able to host fly strains, add your name as well.

This, my dear is the greatest challenge to being alive. To witness injustice in the world and to not allow it to consume our light. Thich Nhat Hahn

"An Intuitive Primer on Effective Functional Genomics Study Design" - Check out @ygilad.bsky.social 's new text book! a.co/d/1bpE1zV

I’m just remembering when companies sued kids for millions of dollars for sharing a few songs online. Now big business is saying they can’t stay in business without stealing everyone’s copyright.

Just rewatched this great talk by Andy Dunn and wish more people thought this way about entrepreneurs and leaders in general

Thrilled to finally share a manuscript from PhD work @UChicagoBMB all about peptides, protein structures, MHCs, and KIRs, inspired by a cool evolutionary backstory. Fun project started with @chaaawie, who was actually the first to teach me how to purify proteins! www.biorxiv.org/content/10.1...

Friendly reminder that if art is how we decorate space, then music is how we decorate time. #booksky #music

I know there's so much news to track at the moment, but let me add some important science to the list: "An unknown disease killed 143 people in a south-west province of Democratic Republic of the Congo in November." www.theguardian.com/world/2024/d...

Well shit

This keeps coming up, and I think there is ambiguity in the field that is really not helpful. So to be clear, based on my knowledge and experience in microbiome research, I am confident that there is no such thing as a "brain microbiome" www.theguardian.com/lifeandstyle... 1/2

Boston-area locals! Join me and your new best biotech friends this Thursday, December 5 @ 5:30 for Engineering Biology Club! Jesse Cochrane, formerly of Tome Biosciences, will be talking about gene editors. Sign up here to attend: www.ginkgobioworks.com/learn/engine...

🌱 Demirer Lab 🌱 @caltech.edu is looking for passionate graduate students to join us! Explore our exciting research for a sustainable future: demirerlab.com 🌏 🌱 🦠 📢 Apply here to CCE or BBE: t.co/cIv8Hbfy0Z and mention your interest in our lab in your statement. 🗓️ Application deadline: Dec 1

Makes me wonder what other proteins are hanging out in the body longer than they should or would be expected 🤔 for some reason I’m surprised by this, but maybe I shouldn’t be?

I sometimes forget how flexible proteins are. It becomes really apparent when you use NMR states for an animation. That poor cofactor is getting pushed around a lot 😅 #sciart #blender3d #biocatalysis

Your reminder that many of the muscles, nerves and bones you use to hear and talk with correspond to gill structures in fish. 🧪 #evolution #paleontology

Anyone have a walkthrough for setting up MD simulations on the cloud (not Google Colab or equivalent)? Personal pet project so can’t use my employer’s resources

I do! Can’t reply to the thread though ✌🏻

We have new postdoc positions available. Please apply if you are interested in protein engineering, continuous evolution, OrthoRep, and/or synthetic biology! recruit.ap.uci.edu/JPF09324. Some particular problems we have a unique angle of attack on include…

I’m excited for tools to continue getting smarter and better like this one when you just want to get basic info on your gene or protein of interest. Right now everything is so scattered. Gotta look on NCBI, Uniprot, UCSC, etc. to get full context!

I am ***absurdly*** excited to announce the launch of a new funding opportunity through Experiment dot com!!! You have one month to pitch something wonderful in the realm of plant biology/biotech research and education. $10,000 max grant. PLEASE RE-POST + SHARE!!! 1/3 experiment.com/programs/pla...

🚨 I want to gather all artists working in Biology, Cell Biology, or Molecular Biology illustration If you know any artists who create this kind of work, let me know so I can add them here. Drop a comment to join! 💬 go.bsky.app/KWAeJxp

I think overall and fwiw, giving more power and responsibility at a younger ages is how academia should move if it wants to continue to attract the best and brightest.

New episode! This time on The Climate Biotech Podcast, Homeworld Collective co-founders Dan Goodwin and Paul Reginato sit down with the legendary George Church—a pioneer in genomics and synthetic biology. Spotify: open.spotify.com/episode/6LfF... Apple Podcasts: podcasts.apple.com/us/podcast/e...

The largest #coral ever recorded has been found by scientists in the southwest Pacific Ocean. The mega coral - which is a collection of many connected, tiny creatures that together form one organism rather than a reef - could be more than 300 years old. 🧪🌊🐟 www.bbc.co.uk/news/article...

More fun compositing experiments #MolecularNodes #b3d #GeometryNodes 🧪

Finally

Maximum likelihood structural phylogeny beyond the twilight zone by combining Foldseek's 3Di alphabet with AA alignments. ML trees resolve the topology of distantly related proteins where traditional AA methods fall short. 📄 www.biorxiv.org/content/10.1... 💾 github.com/nmatzke/3diphy

Crap. www.cnn.com/2023/12/12/e...