@tejalpatwardhan @MilesKWang Would have saved me so much time at the bench, very cool
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Tim Aikin
926 posts
Tim Aikin
@TheDynamicTim
New Ventures @ForesiteLabs applying emerging technology to biotech and therapeutics. Former @NSFGRFP fellow studying cancer & signaling dynamics @JohnsHopkins
Baltimore, MD Bergabung Mart 2015
1.2K Mengikuti513 Pengikut
we used online learning with GPT-5 in a wet lab to find a novel 79x cloning efficiency gain for a gibson assembly protocol
congrats to @MilesKWang for driving this project. important work tracking how AI could impact biology (e.g., protein engineering)
Miles Wang@MilesKWang
While humans acted as GPT-5’s hands for carrying out the protocols, we also piloted an autonomous robot. It was built to execute arbitrary Gibson cloning protocols from natural language, with human supervision for safety.
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Tim Aikin me-retweet
New preprint! 🚨 We uncover a slow adaptation to stretch that links star-bundling of keratin filaments with nuclear escape from its keratin cage. Led by @tom_golde 🙌 @IBECBarcelona biorxiv.org/content/10.110…
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❄️Time-deterministic cryo-optical microscopy, developed by researchers at @UOsaka_en, Janelia & collaborating institutions, rapidly freezes live cells under an optical microscope, capturing a snapshot of cellular activity in high resolution.
The University of Osaka@UOsaka_en
[Research] Freeze-framing the cellular world to capture a fleeting moment of cellular activity dlvr.it/TMgKNV #UOsaka #research
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I'm often asked how human genetics can be used to validate drug targets.
In our new @NatureCVR paper, we provide an end-to-end framework for IL-6 inhibition🧵
👉build a genetic proxy
👉demonstrate potential for cardiovascular benefit
👉assess expected & unexpected safety signals
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Tim Aikin me-retweet
3D cross-sectional views of the dynamics of chromosomes (H2B, blue) and the endoplasmic reticulum (orange) in interphase and mitotic LLC-PK1 cells over a 50 x 180 um field at 6 sec intervals, as seen in the lattice light sheet structured illumination mode of MOSAIC.
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Tim Aikin me-retweet
What does pushing the boundaries of model capacity and data scale do for generative protein language models? I’m super excited to share our latest work @ProfluentBio where we begin to explore and test some of our hypotheses!
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Tim Aikin me-retweet
Astonishing breakthrough in #organoid engineering, as reported in @Nature by T Recaldin,M Harter,L Steinacher,B Gjeta, and colleagues: intestinal epithelial organoids incorporating tissue-resident immune cells. @IHB_Research @Roche go.roche.com/4a5t1
Gray Camp@GrayCampLab
Exciting new inroads into human biology and therapy development: Human intestinal organoids with an autologous tissue-resident immune compartment! #Gjorevski #Cabon #IHB @Nature @IHB_Research #MOESM4" target="_blank" rel="nofollow noopener">nature.com/articles/s4158…
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Tim Aikin me-retweet
Protein design for ...checks notes... growing semiconductors (!!)
Biology is nanotechnology.
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Tim Aikin me-retweet
We’re excited to share our study in @CellCellPress on the role of the MAP3 kinase ZAK in UV-induced apoptosis led by @2primehydroxyl! We studied cell signaling kinetics following UV-damage and found that ZAK drives apoptosis via ribosome collisions. cell.com/cell/fulltext/…
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@NikoMcCarty @ProfTomEllis @hsalis @chofski Wondering how doubling times restrict genome size
Does replication machinery processivity scale with genome size to maintain consistent doubling times? Or do different species accommodate different replication times based on genome size?
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What sets the max limit on genome size?
It seems unlikely to be physical space constraints in the nucleus (even large plant genomes only occupy ~10% of the nucleus volume).
Is it the large amount of energy required for replication? Something else? @ProfTomEllis @hsalis @chofski
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Tim Aikin me-retweet
We are delighted to share our work, now available in
@Nature:
nature.com/articles/s4158…
Our scoring system can be accessed here: kinase-library.phosphosite.org
Coming soon --> the tyrosine kinome and an improved system with many new functionalities & features!
#TheKinaseLibrary #KL
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I remember the first time I heard about this effort from @RegotLab
Very excited to dive into this for two reasons - identification of orphan kinase substrates (new pathways) and development of new synbio tools for kinase signaling.
Great work!
Cantley Lab@CantleyLab
We are delighted to share the #tyrosine @KinaseLibrary, now in @Nature: nature.com/articles/s4158… Tyrosine predictions and enrichment analysis are now available: kinase-library.phosphosite.org #TheKinaseLibrary #KL #part2 🧵 1/9
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Tim Aikin me-retweet
We are delighted to share the #tyrosine @KinaseLibrary, now in @Nature: nature.com/articles/s4158…
Tyrosine predictions and enrichment analysis are now available: kinase-library.phosphosite.org
#TheKinaseLibrary #KL #part2
🧵
1/9
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Connor's paper is out in Science! Thanks to all the present and former lab members for making this possible.
If you are interested in the mechanisms behind stress induced endocycling or the role of CDK4/6 in maintaining G2 arrest, check it out:
science.org/doi/10.1126/sc…
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We joined forces with ARCH Venture Partners /
@rtnarch to incubate @xaira_thera, a biotech company using AI to re-engineer the entire drug discovery and development process. Read more: endpts.com/in-biggest-eve…
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LLMs have proven useful for increasing sequence diversity while maintaining properties and structure, such as binding of antibodies and peptides.
Here @jeffruffolo and @ProfluentBio team demonstrate enzyme sequence diversification while maintaining editing functions. Nice work!
Jeff Ruffolo@jeffruffolo
One of the first projects we took on at @ProfluentBio was designing novel gene editing proteins with language models. This grew into an initiative called OpenCRISPR, and today I’m excited to share that work (including the sequences we designed)! biorxiv.org/content/10.110…
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new results! We describe an optogenetic method to 'paint' patterns of morphogen signals in zebrafish embryos to guide their development. Preprint here:
biorxiv.org/content/10.110…
Check out @LordLab_Pitt's explainer thread for the details!
Nathan Lord@LordLab_Pitt
We’re very excited to share the first preprint from my lab along with @h4rrymcnamara, @BillZJia, @AdamEzraCohen, and Alex Schier. We describe a set of methods for exerting spatial control over Nodal signaling in zebrafish development. biorxiv.org/content/10.110…
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Capturing the axial elongation of a zebrafish embryo (back and forth) using our single objective LSM DaXi #FluorescenceFriday #zebrahub #zebrafish 🐟🔬
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