Filippo Caschera

Synthetic Biology, Artificial Cells, Amphiphile Systems, Machine Learning, Cell-Free Protein Synthesis: Italy, Denmark, Japan, USA, France, Germany, UK.

[Filippo Caschera @Stjle]

Pleased to share my latest review on Cell-Free Protein Synthesis #CFPS and #AI/ML for accelerating drug discovery

https://t.co/3NLojcohJO

#CellFree #SynBio

[Polly Fordyce @fordycelab]

Characterizing AI-designed proteins requires quantitative biochemistry at massive scale. Enter Amplicon/Protein Bead Display (APB-Display), a fully in vitro platform that quantifies Kd's for >100,000 variants in <3 days (preprint link below!) @Stanford_ChEMH @czbiohub (1/n)

[Filippo Caschera @Stjle]

First real-world cell-free distributed biomanufacturing project

https://t.co/UJ6ao5sFce

[Maerkl Lab @MaerklLab]

Pao-Wan and co's paper is published now as well !

"A T7 RNAP regulatory toolbox for cell-free network engineering and biosensing applications"

https://t.co/HjZBeO4WLK

[Kathrin Leppek @KatLeppek]

🚨 1/5 Check out the 2nd preprint from our lab on how IRES-mediated translation of synthetic circRNAs is employed in cells and in cell-free translation extracts, a highly collaborative effort with Immagina & the labs of Anders Lund and CK Chen.

[shimizu @musaibou]

SynCell Asia initiativeです、アジアでも盛り上げていきましょー　https://t.co/IDZeP6WDHU

[Naohiro Terasaka 寺坂 尚紘 @NaohiroTerasaka]

プレプリントをbioRxivで公開しました！市販の無細胞翻訳系を用いて、タンパク質N末端に非天然アミノ酸を高効率に導入する系を作りました。この系で発現したビオチン化バインダーは精製せずに、BLIを用いた相互作用解析に利用できます。 @Okamoto_Yasu_CH との共同研究です。https://t.co/D9OVvTyv3s

[Filippo Caschera @Stjle]

PURE makes PURE: reconstitution of the PURE cell-free system from self-synthesized proteins

https://t.co/YFzHWQSfxM

[Filippo Caschera @Stjle]

Eukaryotic cell-free protein synthesis: Chassis diversification, system engineering, and emerging applications https://t.co/nEqocgyCnj

[shimizu @musaibou]

とうとう民主化運動が始まってしまった　https://t.co/eD3vLIAPn8

[Filippo Caschera @Stjle]

Enhanced tRNA array method version 2 for simultaneous in vitro synthesis of 21 tRNAs https://t.co/9PxSTFhRed

[Filippo Caschera @Stjle]

Cell-Free Systems

https://t.co/RDPgMhA25O

[Riku Nagai @riku_nagai_edu]

🚀 Our new ACS Synthetic Biology paper is out!
We restored protein-primed DNA replication in commercial PURE systems by simply swapping the vendor-supplied energy mix for a homemade counterpart. 🧬⚡
https://t.co/AguVfQ00BM

[Olivier Borkowski @O_Borkowski]

Temporal Programming of Cell-Free Transcription Using Orthogonal Enzyme-Responsive DNA Blockers
https://t.co/4n1CTerns7

[Filippo Caschera @Stjle]

A two-step selection method for in vitro evolution of translational proteins https://t.co/Okcy10Ajtn

[bioRxiv Synthetic Biology @bioRxiv_synbio]

Automated Synthetic Cell-based Screening for Designed Proteins with Emergent Functions https://t.co/aPKG3qlEVf #biorxiv_synbio

[Filippo Caschera @Stjle]

Membrane Composition Influences Expression Yield of Plant Cytochrome P450s in E. coli Lysate-Based Cell-Free Systems | ACS Synthetic Biology https://t.co/lo1MJfsqaW

[市橋 伯一 Norikazu Ichihashi @Nori_Ichihashi]

これは進化実験だけで5000時間かかっている力作です。出てきた現象が「絶滅」というどう扱っていいやらよくわからないものだった��で解析も大変手こずりました。

[bioRxiv Synthetic Biology @bioRxiv_synbio]

In vitro evolution of DNA operators enables multivalency protein-DNA interactions: towards programmable transcription factor regulation https://t.co/tXHeTqUNca #biorxiv_synbio

[Filippo Caschera @Stjle]

A Streamlined and High-Osmolarity Bacillus subtilis Cell-Free Platform for Rapid Characterization of Genetic Regulatory Elements | ACS Synthetic Biology https://t.co/8u3LX1zHJM

[The Align Foundation @Align_Bio]

📊 Engineering better PETases isn’t just a modeling problem, it’s a data problem.

In the PETase Engineering Tournament, we partnered to develop three independent assay platforms to measure expression and activity across temperature and pH: cell-free systems, E. coli + Rapid Fire Mass Spec, and microfluidic droplets.

The takeaways:
→ High-throughput ≠ high-quality
→ Realistic assays ≠ scalable assays
→ Generating reliable, ML-ready data is still the bottleneck

Though challenging, this is the kind of groundwork needed to actually move the field forward.
🔗Full methods + learnings: https://t.co/IzCBunHrES

💪 Many thanks to our sponsor Twist Bioscience for DNA synthesis and to Adaptyv for their valuable collaboration on assay development.

#ProteinEngineering #SyntheticBiology #EnzymeEngineering #MachineLearning #Biotech #AssayDevelopment #DataScience #Bioengineering #Sustainability #PlasticRecycling