@TheDynamicTim

New Ventures @ForesiteLabs applying emerging technology to biotech and therapeutics. Former @NSFGRFP fellow studying cancer & signaling dynamics @JohnsHopkins

 Baltimore, MD
Joined March 2015
  • Tweets929
  • Following1.2K
  • Followers509
24Media
1/ Excited to share our new paper in Science: “Toward life with a 19-amino acid alphabet through generative artificial intelligence design.” @ColumbiaSysBio @ColumbiaBME @Columbia science.org/doi/10.1126/scie… 🦠🧬🛠️🖥️💥

Toward life with a 19–amino acid alphabet through generative artificial intelligence design

Because all known living organisms are made from at least 20 canonical amino acids, the feasibility of life using a more simplified alphabet remains unclear. In this work, we leveraged computational...

science.org
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Tim Aikin retweeted
Jason Sheltzer@JSheltzerApr 28
Thrilled to share my lab’s new preprint describing our discovery of the E2 ubiquitin conjugating enzyme UBE2H as a widely-shared dependency in aneuploid cancer cells. @biorxivpreprint @biorxiv_cancer
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Sam Peng
@CTSPengApr 28
Excited to share our work on ErbB receptors published today @CellCellPress! Using multicolor, photostable UCNPs, we perform long-term (>15 min) single-particle tracking of EGFR, HER2, and HER3, enabling direct visualization of dimerization in live cells. cell.com/cell/fulltext/S0092…
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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/10.1101/…
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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_en25 Aug 2025
[Research] Freeze-framing the cellular world to capture a fleeting moment of cellular activity dlvr.it/TMgKNV #UOsaka #research

Freeze-framing the cellular world to capture a fleeting moment of cellular activity

resou.osaka-u.ac.jp
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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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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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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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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

Human organoids with an autologous tissue-resident immune compartment

Nature - We combined human intestinal immuno-organoids and single-cell transcriptomics to investigate intestinal inflammation triggered by cancer-targeting biologics, which was associated with an...

nature.com
Gray Camp@GrayCampLab14 Aug 2024
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 nature.com/articles/s41586-0…
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Protein design for ...checks notes... growing semiconductors (!!) Biology is nanotechnology.
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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/S0092…

The ribotoxic stress response drives UV-mediated cell death

A comprehensive analysis of molecular and cellular changes following UV irradiation reveals that the ribotoxic stress response, rather than the DNA damage response, mediates UV-dependent programmed...

cell.com
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We are delighted to share our work, now available in @Nature: nature.com/articles/s41586-0… Our scoring system can be accessed here: kinase-library.phosphosite.o… Coming soon --> the tyrosine kinome and an improved system with many new functionalities & features! #TheKinaseLibrary #KL

An atlas of substrate specificities for the human serine/threonine kinome

Nature - Analysis of the kinase activity of 300 protein Ser/Thr kinases reveals that the substrate specificity of the kinome is substantially more diverse than expected and is driven extensively by...

nature.com
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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@CantleyLab8 May 2024
We are delighted to share the #tyrosine @KinaseLibrary, now in @Nature: nature.com/articles/s41586-0… Tyrosine predictions and enrichment analysis are now available: kinase-library.phosphosite.o… #TheKinaseLibrary #KL #part2 🧵 1/9

The intrinsic substrate specificity of the human tyrosine kinome

Nature - An atlas of the substrate specificities for the human tyrosine kinome reveals diversity of motif specificities and enables identification of kinase–substrate relationships and kinase...

nature.com
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We are delighted to share the #tyrosine @KinaseLibrary, now in @Nature: nature.com/articles/s41586-0… Tyrosine predictions and enrichment analysis are now available: kinase-library.phosphosite.o… #TheKinaseLibrary #KL #part2 🧵 1/9

The intrinsic substrate specificity of the human tyrosine kinome

Nature - An atlas of the substrate specificities for the human tyrosine kinome reveals diversity of motif specificities and enables identification of kinase–substrate relationships and kinase...

nature.com
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Tim Aikin retweeted
Sergi Regot@RegotLab6 May 2024
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/scie…

CDK4/6 activity is required during G2 arrest to prevent stress-induced endoreplication

Cell cycle events are coordinated by cyclin-dependent kinases (CDKs) to ensure robust cell division. CDK4/6 and CDK2 regulate the growth 1 (G1) to synthesis (S) phase transition of the cell cycle by...

science.org
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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-ever-b…

Exclusive: In $1B+ bet on AI, biopharma heavyweights back new startup to upend drug R&D

A star-studded mix of venture capitalists and scientists, backed by more than a billion dollars, is launching an ambitious biotech that aims to reinvent drug R&D using artificial intelligence, the ...

endpoints.news
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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
@jeffruffolo22 Apr 2024
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/10.1101/…
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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/10.1101/… Check out @LordLab_Pitt's explainer thread for the details!
Nathan Lord@LordLab_Pitt18 Apr 2024
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/10.1101/…

Optogenetic control of Nodal signaling patterns

A crucial step in early embryogenesis is the establishment of spatial patterns of signaling activity. Tools to perturb morphogen signals with high resolution in space and time can help reveal how...

biorxiv.org
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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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In our new preprint, we show that CRISPR activation of of just two endogenous regulatory elements is sufficient to self-organize embryonic stem cells into spatially-ordered embryonic patterns. biorxiv.org/content/10.1101/… #crispr
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