Michael Nguyen
@mtan91.bsky.social
Postdoc @ Yale. Synthetic biologist 🧬
Reposted by Michael Nguyen
🚨Postdoc opening: Integrative structural biology and interactions of disordered regions in plant transporters.
Skills sought: Protein experience (ideally IDPs/MPs), NMR, SAXS, smFRET, biophysics and similar.
Come find me at #BPS26 or reach out to learn more!
mbg.au.dk/aktuelt/ledi...
Skills sought: Protein experience (ideally IDPs/MPs), NMR, SAXS, smFRET, biophysics and similar.
Come find me at #BPS26 or reach out to learn more!
mbg.au.dk/aktuelt/ledi...
Postdoc: Integrative structural biology and biophysics of dynamic plant hormone transporters - Ledig stilling på Aarhus Universitet
Ledig stilling ved Institut for Molekylærbiologi og Genetik - Proteinvidenskab, Aarhus Universitet
mbg.au.dk
February 15, 2026 at 3:12 PM
🚨Postdoc opening: Integrative structural biology and interactions of disordered regions in plant transporters.
Skills sought: Protein experience (ideally IDPs/MPs), NMR, SAXS, smFRET, biophysics and similar.
Come find me at #BPS26 or reach out to learn more!
mbg.au.dk/aktuelt/ledi...
Skills sought: Protein experience (ideally IDPs/MPs), NMR, SAXS, smFRET, biophysics and similar.
Come find me at #BPS26 or reach out to learn more!
mbg.au.dk/aktuelt/ledi...
Reposted by Michael Nguyen
FoldMason is out now in @science.org. It generates accurate multiple structure alignments for thousands of protein structures in seconds. Great work by Cameron L. M. Gilchrist and @milot.bsky.social.
📄 www.science.org/doi/10.1126/...
🌐 search.foldseek.com/foldmason
💾 github.com/steineggerla...
📄 www.science.org/doi/10.1126/...
🌐 search.foldseek.com/foldmason
💾 github.com/steineggerla...
Multiple protein structure alignment at scale with FoldMason
Protein structure is conserved beyond sequence, making multiple structural alignment (MSTA) essential for analyzing distantly related proteins. Computational prediction methods have vastly extended ou...
www.science.org
January 30, 2026 at 6:11 AM
FoldMason is out now in @science.org. It generates accurate multiple structure alignments for thousands of protein structures in seconds. Great work by Cameron L. M. Gilchrist and @milot.bsky.social.
📄 www.science.org/doi/10.1126/...
🌐 search.foldseek.com/foldmason
💾 github.com/steineggerla...
📄 www.science.org/doi/10.1126/...
🌐 search.foldseek.com/foldmason
💾 github.com/steineggerla...
Reposted by Michael Nguyen
Here's an article I wrote that @nature.com turned down, on Crick and his half-century relationship with Nature. It condenses all the material relating to Nature that appeared in my Crick biography (apart from the double helix, which you can find here: www.nature.com/articles/d41...
Francis Crick and Nature
A relationship that lasted nearly 50 years and which saw the publication of some key papers in the history of science, and some complete nonsense.
matthewcobb2.substack.com
January 28, 2026 at 10:47 AM
Here's an article I wrote that @nature.com turned down, on Crick and his half-century relationship with Nature. It condenses all the material relating to Nature that appeared in my Crick biography (apart from the double helix, which you can find here: www.nature.com/articles/d41...
Reposted by Michael Nguyen
#SynBYSS webinar, 10am Chicago time
187th, Jan 29: Prof Dina Petranovic at DTU, Denmark & Dr Michael Grome at Yale U
188th, Feb 5: Prof Jens Nielsen at BioInnovation Institute & Dr Simon d'Oelsnitz at Harvard Med School
Zoom link and 2026 season schedule are below:
docs.google.com/spreadsheets...
187th, Jan 29: Prof Dina Petranovic at DTU, Denmark & Dr Michael Grome at Yale U
188th, Feb 5: Prof Jens Nielsen at BioInnovation Institute & Dr Simon d'Oelsnitz at Harvard Med School
Zoom link and 2026 season schedule are below:
docs.google.com/spreadsheets...
SynBYSS_2026
docs.google.com
January 28, 2026 at 2:02 PM
#SynBYSS webinar, 10am Chicago time
187th, Jan 29: Prof Dina Petranovic at DTU, Denmark & Dr Michael Grome at Yale U
188th, Feb 5: Prof Jens Nielsen at BioInnovation Institute & Dr Simon d'Oelsnitz at Harvard Med School
Zoom link and 2026 season schedule are below:
docs.google.com/spreadsheets...
187th, Jan 29: Prof Dina Petranovic at DTU, Denmark & Dr Michael Grome at Yale U
188th, Feb 5: Prof Jens Nielsen at BioInnovation Institute & Dr Simon d'Oelsnitz at Harvard Med School
Zoom link and 2026 season schedule are below:
docs.google.com/spreadsheets...
Reposted by Michael Nguyen
If you work with R6K plasmids for transient DNA delivery, our latest SHARK strains might be of use! Work out at ACS Synthetic Biology led by Shivang Joshi and strains plus plasmids for their assembly will be available @addgene.bsky.social very soon! doi.org/10.1021/acss...
January 14, 2026 at 7:01 AM
If you work with R6K plasmids for transient DNA delivery, our latest SHARK strains might be of use! Work out at ACS Synthetic Biology led by Shivang Joshi and strains plus plasmids for their assembly will be available @addgene.bsky.social very soon! doi.org/10.1021/acss...
Reposted by Michael Nguyen
They say the sincerest form of flattery is mimicry, and we really love histidine! ❤️ Check out our most recent work on histidine mimics: Genetic incorporation of diverse non-canonical amino acids for histidine substitution. www.biorxiv.org/content/10.1...
November 6, 2025 at 8:30 AM
They say the sincerest form of flattery is mimicry, and we really love histidine! ❤️ Check out our most recent work on histidine mimics: Genetic incorporation of diverse non-canonical amino acids for histidine substitution. www.biorxiv.org/content/10.1...
Reposted by Michael Nguyen
We demonstrated how to make and dissolve #RNA #condensates through strand displacement using synthetic genes - excited to see this new paper out in @narjournal.bsky.social Collab w/ the Andersen group @esandersen.bsky.social academic.oup.com/nar/article/...
Switchable RNA motifs for dynamic transcriptional control of RNA condensates
Abstract. RNA-driven phase separation is emerging as a promising approach for engineering biomolecular condensates with diverse functionalities. Condensate
academic.oup.com
June 26, 2025 at 2:53 PM
We demonstrated how to make and dissolve #RNA #condensates through strand displacement using synthetic genes - excited to see this new paper out in @narjournal.bsky.social Collab w/ the Andersen group @esandersen.bsky.social academic.oup.com/nar/article/...
Reposted by Michael Nguyen
📜:🧬🔬
I am excited to announce that our paper is now out in the journal NAR!
doi.org/10.1093/nar/...
A big thank you to all the co-authors — Ewan, Phil, and Ebbe! And, most notably, congratulations to Niels on your first publication! Thanks also to the EMBION facility at AU 🔬!
(1/4)
I am excited to announce that our paper is now out in the journal NAR!
doi.org/10.1093/nar/...
A big thank you to all the co-authors — Ewan, Phil, and Ebbe! And, most notably, congratulations to Niels on your first publication! Thanks also to the EMBION facility at AU 🔬!
(1/4)
Roles of dimeric intermediates in RNA-catalyzed rolling circle synthesis
Abstract. The RNA world hypothesis is supported by the discovery of RNA polymerase ribozymes that can perform RNA-catalyzed RNA replication processes on di
doi.org
June 18, 2025 at 9:40 AM
📜:🧬🔬
I am excited to announce that our paper is now out in the journal NAR!
doi.org/10.1093/nar/...
A big thank you to all the co-authors — Ewan, Phil, and Ebbe! And, most notably, congratulations to Niels on your first publication! Thanks also to the EMBION facility at AU 🔬!
(1/4)
I am excited to announce that our paper is now out in the journal NAR!
doi.org/10.1093/nar/...
A big thank you to all the co-authors — Ewan, Phil, and Ebbe! And, most notably, congratulations to Niels on your first publication! Thanks also to the EMBION facility at AU 🔬!
(1/4)
Reposted by Michael Nguyen
Happy to share the peer-reviewed and updated version of our work on OrthoRep-driven evolution of aaRSs for genetic code expansion with unnatural amino acids. Congrats to Yuichi Furuhata, a true master bioengineer, on leading this excellent work! www.nature.com/articles/s41...
Directed evolution of aminoacyl-tRNA synthetases through in vivo hypermutation - Nature Communications
Genetic code expansion (GCE) enables the incorporation of new amino acids into proteins. Here, authors demonstrate the rapid OrthoRep-driven evolution of aminoacyl-tRNA synthetases for GCE, increasing...
www.nature.com
May 24, 2025 at 3:02 PM
Happy to share the peer-reviewed and updated version of our work on OrthoRep-driven evolution of aaRSs for genetic code expansion with unnatural amino acids. Congrats to Yuichi Furuhata, a true master bioengineer, on leading this excellent work! www.nature.com/articles/s41...
Reposted by Michael Nguyen
🎉 Congrats to Nate for his awesome preprint! We used deep learning to design phages with complex infectivity and specificity profiles. Big shifts in host targeting come from just a few mutations! Training on multifunctional data enables precise control over protein properties 🧬
tinyurl.com/yc4wtn8h
tinyurl.com/yc4wtn8h
Multiobjective learning and design of bacteriophage specificity
To better understand and design proteins, it is crucial to consider the multifunctional landscapes on which all proteins exist. Proteins are often optimized for single functions during design and engi...
tinyurl.com
May 20, 2025 at 3:10 PM
🎉 Congrats to Nate for his awesome preprint! We used deep learning to design phages with complex infectivity and specificity profiles. Big shifts in host targeting come from just a few mutations! Training on multifunctional data enables precise control over protein properties 🧬
tinyurl.com/yc4wtn8h
tinyurl.com/yc4wtn8h
Reposted by Michael Nguyen
Come with me as I try to build a modular open-source 24-well Plate Reader from scratch. I'll post updates regularly on this thread and then compile it to my open lab notebook later. Let's make some tools!
🛠️🧵
1/n
🛠️🧵
1/n
May 1, 2025 at 4:40 AM
Come with me as I try to build a modular open-source 24-well Plate Reader from scratch. I'll post updates regularly on this thread and then compile it to my open lab notebook later. Let's make some tools!
🛠️🧵
1/n
🛠️🧵
1/n
Reposted by Michael Nguyen
Why test #celltherapies one-by-one when you can use multiplexed #SynBio #proteinengineering & #ML to design, measure & track them at scale?
The Goodman Lab @upenn.edu opens July 2025. We’re hiring at all levels!
More info: www.goodman-lab.org
Apply @ bit.ly/42BnJNJ
Reposts appreciated! 🙏
The Goodman Lab @upenn.edu opens July 2025. We’re hiring at all levels!
More info: www.goodman-lab.org
Apply @ bit.ly/42BnJNJ
Reposts appreciated! 🙏
April 29, 2025 at 11:01 PM
Why test #celltherapies one-by-one when you can use multiplexed #SynBio #proteinengineering & #ML to design, measure & track them at scale?
The Goodman Lab @upenn.edu opens July 2025. We’re hiring at all levels!
More info: www.goodman-lab.org
Apply @ bit.ly/42BnJNJ
Reposts appreciated! 🙏
The Goodman Lab @upenn.edu opens July 2025. We’re hiring at all levels!
More info: www.goodman-lab.org
Apply @ bit.ly/42BnJNJ
Reposts appreciated! 🙏
Reposted by Michael Nguyen
>4 megabase synthetic genome assembled in E.coli with 7 of life's 64 codons removed throughout. A new landmark for synthetic genomes. I wonder how well this little cell grows...
Escherichia coli with a 57-codon genetic code https://www.biorxiv.org/content/10.1101/2025.05.02.651837v1
May 2, 2025 at 9:35 PM
>4 megabase synthetic genome assembled in E.coli with 7 of life's 64 codons removed throughout. A new landmark for synthetic genomes. I wonder how well this little cell grows...
Reposted by Michael Nguyen
It seems there are no free-living organisms known to rely exclusively on one other organism for their survival
Until perhaps now
Check out our latest publication in @natmicrobiol.nature.com to see how we designed an exclusive microbial reliance using GCE
rdcu.be/ekepI
1/2
Until perhaps now
Check out our latest publication in @natmicrobiol.nature.com to see how we designed an exclusive microbial reliance using GCE
rdcu.be/ekepI
1/2
Engineered orthogonal and obligate bacterial commensalism mediated by a non-standard amino acid
Nature Microbiology - A genetically engineered microbial symbiosis based on synthetic auxotrophy is created, with potential implications as a biocontainment strategy.
rdcu.be
May 1, 2025 at 10:30 AM
It seems there are no free-living organisms known to rely exclusively on one other organism for their survival
Until perhaps now
Check out our latest publication in @natmicrobiol.nature.com to see how we designed an exclusive microbial reliance using GCE
rdcu.be/ekepI
1/2
Until perhaps now
Check out our latest publication in @natmicrobiol.nature.com to see how we designed an exclusive microbial reliance using GCE
rdcu.be/ekepI
1/2
Reposted by Michael Nguyen
Hey #RNA world, we are excited to share our RNA design engine #pyFuRNAce - an integrated tool for RNA origami experts and novices alike. Kudos to @monari-luca.bsky.social @floppleton.bsky.social et al! Preprint: www.biorxiv.org/content/10.1... Try it out at pyfurnace.de Feedback welcome!
PyFuRNAce: An integrated design engine for RNA origami
To realize the full potential of RNA nanotechnology and RNA origami, user-friendly design tools are needed. Here, we present pyFuRNAce, an open-source, Python-based software package with a graphical u...
www.biorxiv.org
April 20, 2025 at 12:29 PM
Hey #RNA world, we are excited to share our RNA design engine #pyFuRNAce - an integrated tool for RNA origami experts and novices alike. Kudos to @monari-luca.bsky.social @floppleton.bsky.social et al! Preprint: www.biorxiv.org/content/10.1... Try it out at pyfurnace.de Feedback welcome!
Reposted by Michael Nguyen
2025 Cold Spring Harbor Laboratory Course in Synthetic Biology - apply!
Deadline: April 14, 2025
Financial Aid: Stipend awards are available.
Notifications: Applicants will be notified by May 15, 2025.
meetings.cshl.edu/courses.aspx...
Deadline: April 14, 2025
Financial Aid: Stipend awards are available.
Notifications: Applicants will be notified by May 15, 2025.
meetings.cshl.edu/courses.aspx...
Synthetic Biology
Cold Spring Harbor Laboratory Meetings & Courses -- a private, non-profit institution with research programs in cancer, neuroscience, plant biology, genomics, bioinformatics.
meetings.cshl.edu
March 31, 2025 at 6:45 PM
2025 Cold Spring Harbor Laboratory Course in Synthetic Biology - apply!
Deadline: April 14, 2025
Financial Aid: Stipend awards are available.
Notifications: Applicants will be notified by May 15, 2025.
meetings.cshl.edu/courses.aspx...
Deadline: April 14, 2025
Financial Aid: Stipend awards are available.
Notifications: Applicants will be notified by May 15, 2025.
meetings.cshl.edu/courses.aspx...
Reposted by Michael Nguyen
Online now: Expediting genome synthesis of Corynebacterium glutamicum with an artificial chromosome vector
Expediting genome synthesis of Corynebacterium glutamicum with an artificial chromosome vector
We developed an artificial chromosome plasmid (CAC) for large-scale genome replacement of Corynebacterium glutamicum, accelerating the genome synthesis for this organism. This work offers design principles for advancing de novo genome design and synthesis for industrially relevant Gram-positive microbes.
dlvr.it
March 29, 2025 at 3:14 PM
Online now: Expediting genome synthesis of Corynebacterium glutamicum with an artificial chromosome vector
Reposted by Michael Nguyen
I'm excited to share our latest publication on co-transcriptional RNA folding in a eukaryote! Great work by Leo Schärfen with collaboration from Isaac Vock and Matt Simon! @leoschaerfen.bsky.social @mattdsimon.bsky.social
Here is the link that works! authors.elsevier.com/a/1kpxo_Oylr...
Here is the link that works! authors.elsevier.com/a/1kpxo_Oylr...
authors.elsevier.com
March 26, 2025 at 1:07 PM
I'm excited to share our latest publication on co-transcriptional RNA folding in a eukaryote! Great work by Leo Schärfen with collaboration from Isaac Vock and Matt Simon! @leoschaerfen.bsky.social @mattdsimon.bsky.social
Here is the link that works! authors.elsevier.com/a/1kpxo_Oylr...
Here is the link that works! authors.elsevier.com/a/1kpxo_Oylr...
Reposted by Michael Nguyen
🎉Congrats to Chase on her new preprint! She developed OMEGA--a simple method for assembling custom gene panels for as little as $1.50 per gene. Big step forward protein engineering and design!🧬
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Scalable and cost-efficient custom gene library assembly from oligopools
Advances in metagenomics, deep learning, and generative protein design have enabled broad in silico exploration of sequence space, but experimental characterization is still constrained by the cost an...
www.biorxiv.org
March 24, 2025 at 4:50 PM
🎉Congrats to Chase on her new preprint! She developed OMEGA--a simple method for assembling custom gene panels for as little as $1.50 per gene. Big step forward protein engineering and design!🧬
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Reposted by Michael Nguyen
Let's meet in Denmark to discuss our Metabolic Engineering research!
Poster abstract submission is still open!
IMES, AIChE
Poster abstract submission is still open!
IMES, AIChE
March 19, 2025 at 8:13 PM
Let's meet in Denmark to discuss our Metabolic Engineering research!
Poster abstract submission is still open!
IMES, AIChE
Poster abstract submission is still open!
IMES, AIChE
Reposted by Michael Nguyen
Amazing work from Farren Isaacs team at Yale - reducing E.coli's genetic code down to only using a single stop codon. A 62 codon GRO with lots of potential for applications. www.nature.com/articles/s41...
Engineering a genomically recoded organism with one stop codon - Nature
Ochre, a strain of Escherichia coli engineered to have a single stop codon, enables reassignment of four codons for non-degenerate functions, such as incorporation of non-standard amino acids into pro...
www.nature.com
February 6, 2025 at 10:27 AM
Amazing work from Farren Isaacs team at Yale - reducing E.coli's genetic code down to only using a single stop codon. A 62 codon GRO with lots of potential for applications. www.nature.com/articles/s41...