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の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