Arcadia Science
@arcadiascience.com
Research and development company leveraging the biology of diverse organisms. Read about our science: http://research.arcadiascience.com
Assembly and annotation artifacts can lead to problematic protein structural inferences
Assembly and annotation artifacts can lead to problematic protein structural inferences
Protein structures inferred by protein structure prediction algorithms have incredible potential, but can contain errors stemming from incorrect input sequences. Here, we investigate one such case in...
doi.org
Morphological transformation of Chlamydomonas smithii grown in Marine Broth medium
Morphological transformation of Chlamydomonas smithii grown in Marine Broth medium
Marine Broth induces extreme morphological transformation in C. smithii: Cells shift from typical ellipsoid shape to amorphous forms with thin wisp-like appendages containing mitochondria, revealing...
doi.org
#PubDrop bsky.app/profile/rish...
Rishi De-Kayne@rishidekayne.bsky.social · 4mo agoNew pub! We analyzed protein structures across 36 Drosophila species and found something unexpected: tandem dimers and even trimers lurking in protein structure databases that likely aren't real proteins at all. 🧵 thestacks.org/publications... [1/9]
1/6 What does MSA Pairformer learns about evolutionary relationships? @yoakiyama.bsky.social et al achieved impressive contact & variant-fitness predictions w a fraction of ESM2's parameters; we wanted to better understand the mechanism arcadia-science.github.io/2025-phyloge... 🧪🧬 🖥️
A free, open-access library of high-quality organism illustrations for science communication
A free, open-access library of high-quality organism illustrations for science communication
We create vector graphics of model organisms and emerging biological research organisms to enhance our publications. We’re sharing these editable graphics under a CC0 license for other scientists to...
doi.org
Introducing AutoOpenRaman, an automated, inexpensive microscope setup for Raman spectroscopy! We recapitulated many features of expensive commercial systems using economical hardware and open-source software 🧵 [1/8] research.arcadiascience.com/pub/resource...
AutoOpenRaman: Low-cost, automated Raman spectroscopy
We developed AutoOpenRaman, an automated, inexpensive microscope for Raman spectroscopy. We recapitulated many features of expensive commercial Raman spectroscopy systems using economical hardware and...
research.arcadiascience.com
Chlamydomonas cpc1-1 mutant exhibits unexpected growth phenotypes
Chlamydomonas cpc1-1 mutant exhibits unexpected growth phenotypes
Comparative analysis of <i>Chlamydomonas </i>strains revealed that a <i>cpc1-1</i> mutant has three unexpected growth phenotypes across different media types, suggesting possible genetic background contributions...
doi.org
After many yrs building internally @arcadiascience.com we're now able to partner more with others on cool organisms. You won't hurt my feelings if you don't read my post, but don't miss out on our first organismal spotlight animation featuring sea squirts -- just skip to the bottom! 🧵
Our blog is now on Substack! Check out our first post there, which includes a fun video we made about why you might want to study sea squirts open.substack.com/pub/arcadias...
Zoogle Suggested We Try a Sea Squirt, So We Did
It’s true that no model is perfect, but how can we find ones that are less wrong? We’re excited to announce two research partnerships investigating predicted matches between diseases and research orga...
open.substack.com
Want to give input to help your fellow scientists? We’ve updated our list of preprints in need of feedback: bit.ly/preprintrequests We’re having our own preprint commenting event next Friday. We’ll consider reading your work if you add it to the list: bit.ly/submitpreprint
Two Arcadia talks today! 11:15 am — Athena CD — George Sandler “The potential of machine learning for genomic prediction in a quantitative genetics framework” 11:45 am — Athena F — Ryan York “Evolution determines what machines can learn”
Calling all scientists! 🚨 Share feedback on preprints that need it! Check out our updated list: bit.ly/preprintrequests We’re hosting our next internal preprint commenting party this Friday, and might review your work! Submit it here: bit.ly/submitpreprint
As #Evol2025 talks wrap up for the day, our mixer begins! Come upstairs at The Globe any time til 7:30 to learn about opportunities at Arcadia over charcuterie & drinks 🍷🧀 We’re looking for a Computational Evolutionary Biologist, Evolutionary Cell Biologist, and more…
📢 Hey #Evol2025 attendees, we’re hiring! If you’re interested in #careers at Arcadia, swing by our free mixer upstairs at The Globe today from 5:30 to 7:30. It’s a 7-minute walk from the Classic Center and drinks are free 🍻 jobs.lever.co/arcadiascience
First Arcadia talk at @evolmtg.bsky.social! #Evol2025 Today — 3 pm — Athena CD Austin Patton presents “Graph neural networks: A unifying predictive model architecture for evolutionary applications”
We’re at @evolmtg.bsky.social! Follow us for updates on talks as the conference unfolds. We’re also hosting a free careers mixer 🍺 at The Globe tomorrow @ 5:30 pm — join us! #Evol2025
>march 10 @arcadiascience.com announces new form of rapid publishing >apr 18 team reads a preprint, finds it interesting >9 work days later, team publishes results validating and extending model this is how science should be. open, rapid, with the community arcadia-science.github.io/2025-geno-ph...
Cross-trait learning with a canonical transformer tops custom attention in genotype-phenotype mapping –
arcadia-science.github.io
Not only do we do cool science but we have a badass illustrator for our pubs
One of our scientists whipped up a lit review terminal program where AI agents with different expertise collaboratively discuss #biorxiv and #arxiv preprints 🤖🧪📚 github.com/Arcadia-Scie... Anyone here using an agent-based research tool you recommend?
GitHub - Arcadia-Science/agent-literature-review
Contribute to Arcadia-Science/agent-literature-review development by creating an account on GitHub.
github.com
Help advance science by giving feedback! #SharingIsCaring Browse our list of preprints that need feedback: bit.ly/preprintrequests We’re hosting a #preprint commenting event this Friday — submit your work for consideration: bit.ly/submitpreprint
Early update on Arcadia publishing 2.0: Scientists are in charge, speed is an issue
Early update on Arcadia publishing 2.0: Scientists are in charge, speed is an issue · Reimagining scientific publishing
Since starting v2 of our publishing model to restore scientist agency, pub “quality” has been similar, and this approach is more efficient overall. The major downside is that pubs take longer. We’re...
buff.ly
Rescuing Chlamydomonas Motility in Mutants Modeling Spermatogenic Failure
Rescuing Chlamydomonas motility in mutants modeling spermatogenic failure · Genetics: Decoding evolutionary drivers across biology
We used Chlamydomonas reinhardtii motility mutants with disrupted genes homologous to human SPEF2 or DNALI1 to model spermatogenic failure disorders SPGF43 and SPGF83, respectively. We recovered aspects...
buff.ly
