13 papers · ranked by Valyu relevance
Parth Chansoria, Dominic Rütsche, Anny Wang, Hao Liu + 7 more
Accelerating the designing and manufacturing of complex shapes has been a driving factor of modern industrialization. This has led to numerous advances in computational design and modeling and novel additive manufacturing (AM) techniques that can create complex shapes for bespoke applications. By combining a new…
Amelie Erben, Thomas Kellerer, Josefine Lissner, Constanze Eulenkamp + 4 more
Bioinspired 3D microfluidic systems that combine vascularization with extracellular matrix architectures of organotypic geometry, composition and biophysical traits can help advance our understanding of microorgan physiology. Here, two-photon stereolithography is adopted to fabricate freestanding perfusable 3D cell…
Yun-Fei Liu, Marina Bedny
Programming is a cornerstone of modern society, yet its cognitive and neural basis remains poorly understood. In this study, we test the hypothesis that programming “recycles” pre-existing neural mechanisms and representations in fronto-parietal reasoning networks. Using fMRI, we scanned programming-naïve…
Brian Hie, Salvatore Candido, Zeming Lin, Ori Kabeli + 4 more
Combining a basic set of building blocks into more complex forms is a universal design principle. Most protein designs have proceeded from a manual bottom-up approach using parts created by nature, but top-down design of proteins is fundamentally hard due to biological complexity. We demonstrate how the modularity and…
Aditi T. Merchant, Daniel Guo, Ben Viggiano, Lucas Brennan-Almaraz + 6 more
Programmable composition of complex systems is a longstanding goal of biological research. Generative modeling has improved the reliability of computational design, but existing methods are highly specialized and are difficult to extend or compose. Here, we introduce Proto, a high-level programming language for…
Patrícia Verdugo Pascoal, Deborah Bambil, Rayane N. Lima, Marco Antônio de Oliveira + 3 more
Quantum biology is an emergent field that investigates quantum-mechanical phenomena, such as superposition, tunneling, and entanglement, in the context of data manipulation from living systems. The exploration and engineering of nucleotide sequences rely on quantum mechanical principles, particularly the use of qubit…
Kathleen S. Dreyer, Anh V. Nguyen, Gauri G. Bora, Lauren E. Redus + 6 more
Genetic programs can direct living systems to perform diverse, pre-specified functions. As the library of parts available for building such programs continues to expand, computation-guided design is increasingly helpful and necessary. Predictive models aid the challenging design process, but iterative simulation and…
Tristan Stérin, Abeer Eshra, Janet Adio, Constantine Glen Evans + 1 more
Like life, computers are out-of-equilibrium.^1,2^ Thermodynamically favoured error states are thwarted by energetically-costly processes such as kinetic proofreading of biological polymers, error-correcting codes in computer data storage, and redundancy in molecular programming. Decades of theoretical work shows that…
Anh Phong Tran, Dhruv D. Jatkar, M. Ali Al-Radhawi, Elizabeth A. Ernst + 1 more
Minimal synthesis of Boolean functions is an NP-hard problem, and heuristic approaches typically give suboptimal circuits. However, in the emergent field of synthetic biology, genetic logic designs that use even a single additional Boolean gate can render a circuit unimplementable in a cell. This has led to a renewed…
Tianchi Chen, M. Ali Al-Radhawi, Christopher A. Voigt, Eduardo D. Sontag
A design for genetically-encoded counters is proposed via repressor-based circuits. An N -bit counter reads sequences of input pulses and displays the total number of pulses, modulo 2^N^ . The design is based on distributed computation, with specialized cell types allocated to specific tasks. This allows scalability…
Joel Shor, Erik Strand, Cory Y. McLean
An outstanding open problem with high therapeutic value is how to design nucleic acid sequences with specific properties. Even just the 5’ UTR sequence admits 2 × 10^120^ possibilities, making exhaustive exploration impossible. Although the field has focused on developing high-quality predictive models, techniques for…
Frederick Starkey, Filippo Menolascina
Synthetic Biology aims to rationally engineer biological systems. Current methods often employ an initial human designed circuit topology and utilise iterative approaches, e.g. directed evolution, to fine-tune part function. This approach can be extremely time consuming and resource intensive whilst often reaching…
Binjie Guo, Hanyu Zheng, Xurong Lin, Haohan Jiang + 16 more
Artificial intelligence (AI) offers significant potential to accelerate the functional engineering of adeno-associated virus (AAV) capsids in a time- and cost-efficient manner. However, existing approaches lack the ability to systematically map capsid sequences to multifunctional properties. To address this challenge…