Colin Jackson

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Colin Jackson

Colin Jackson

@Jackson_Lab

Protein Engineering and Evolution. Views my own.

Katılım Ağustos 2013
1K Takip Edilen2K Takipçiler
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Jennifer Listgarten
Jennifer Listgarten@jlistgarten·
Our review on AI for protein engineering is out now, about this too-fast-moving field full of hype and overclaim, yet one that is having a real impact on the world and can be described in a coherent manner without histrionics science.org/eprint/666XRGR…
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Jennifer Listgarten
Jennifer Listgarten@jlistgarten·
Our new ICLR paper on leveraging “soft decomposability” of design spaces (eg protein sequence) wrt a target property (eg enzymatic activity) in order to more efficiently search through the design space. Active site vs. scaffold, for eg. @jamesbowden_ joint with @svlevine
James Bowden@jamesbowden_

I'm excited to share our ICLR paper on how leveraging decomposability can enable more efficient scientific design, with @jlistgarten and @svlevine. We were motivated by protein design in particular. Check out the blog post: james-bowden.github.io/dado/.

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Jennifer Listgarten
Jennifer Listgarten@jlistgarten·
Our new paper on leveraging ML to characterize the fitness landscape of two proteins binding through evolution, wrt geometry, epistasis, etc. The super hard work of Hanlun Jiang, Stephan Allenspach and @jamesbowden_ on our end. science.org/doi/10.1126/sc…
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Jennifer Listgarten
Jennifer Listgarten@jlistgarten·
New, full length ProteinGuide manuscript, now spanning interpolative, extrapolative and multi-property (extending Pareto optimality) settings; comparisons to fine-tuning; and beating 7 rounds of directed evolution with just one round of ProteinGuide. arxiv.org/abs/2505.04823
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Fasan Lab
Fasan Lab@FasanLab·
Delighted to share our publication in @NatureComms on the computational design of generalist carbene transferases with tailored, stereodivergent selectivity! Great collab with Sagar Khare! Kudos to Zhuofan, Mary, and Xinkun and all other coauthors! nature.com/articles/s4146…
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Stephanie Wankowicz
Stephanie Wankowicz@stephanie_mul·
New Preprint!! We show that binding entropy can be quantitatively predicted from crystallographic ensemble models, accounting for both protein conformational entropy and solvent entropy! biorxiv.org/content/10.648…
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Colin Jackson
Colin Jackson@Jackson_Lab·
Project started by Jack and led by Sacha
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Colin Jackson
Colin Jackson@Jackson_Lab·
biorxiv.org/content/10.6... most proteins are multi domain but our understanding of how architectures evolve is limited - we mapped 40K chitinases and show a stepwise grammar of domain gain/loss and localisation changes that predicts ecological strategy and physiological function
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Colin Jackson
Colin Jackson@Jackson_Lab·
Protein design mostly targets single domains; but bio builds function by recombining domains into larger multi domain proteins. Understanding the evolutionary rules of domain assembly will be important if we want to design the level of functionality seen in many native proteins
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Hongyi Xu
Hongyi Xu@XUEY85·
Excited to share our latest work: Continuous Serial Electron Diffraction for High Quality Protein Structures biorxiv.org/content/10.110…
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KNAN
KNAN@4Kn4n·
I’m crine bro 😭
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Nature Chemical Biology
Nature Chemical Biology@nchembio·
‘Protein evolution as a complex system’ – A new Comment discusses protein evolution in terms of complex systems theory and machine learning approaches to model the dynamics of protein evolution nature.com/articles/s4158…
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Frances Arnold
Frances Arnold@francesarnold·
Really proud of this work by Jae Kennemur and Yueming Long. #Enzymes rock, with a little help from #directedevolution to do #chemistry not known in nature (and not easily done by humans).
Enzyme Chemistry@EnzymeChemistry

#Enzymatic Stereodivergent Synthesis of Azaspiro[2.y]alkanes by Jennifer L. Kennemur, Yueming Long, Catherine J. Ko, Anuvab Das, and @francesarnold at @CaltechCCE in @J_A_C_S pubs.acs.org/doi/10.1021/ja…

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Vatsan Raman
Vatsan Raman@vatsanraman·
Excited to share our new work—PhageMaP, a high-throughput platform for genome-wide knockout screening in diverse phages across multiple hosts. PhageMap reveals essential, non-essential and conditionally-essential genes, interactors with host anti-phage defenses & enables rational phage design. Fun collab with Charlie Mo, exceptional work by Jackie Chen! 📝 Cell Host & Microbe: doi.org/10.1016/j.chom…
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Keşfet

@jamesbowden_ @svlevine @NatureComms @schmidtsciences @FutureHouseSF @ISMEJournal @UNSWBABS @UNSWScience