5 papers · ranked by Valyu relevance
Xuebin Feng, Emma R. Master
Sequence similarity networks (SSNs) are graphical representations of sequence relationship frequently used for exploring protein sequence space. Conventional SSN workflows typically use BLAST to calculate sequence similarities and rely on external visualization tools to generate the final networks. Consequently, raw…
Ana Lúcia Leitão, Francisco J Enguita
The evolution of molecular visualization software represents a pivotal yet often underappreciated dimension of computational structural biology and bioinformatics. As the scale and complexity of structural datasets increase, spanning from cryo-electron microscopy reconstructions to proteome-wide AI-predicted models…
Alp Tartici, Mihajlo Stojkovic, Anru Tian, Michael C. Jewett + 2 more
Protein engineering has important implications in the bioeconomy, enabling applications in materials, medicine, and energy. A key challenge is designing protein sequences that have a specific form and function. Protein inverse folding seeks to address this challenge by identifying amino acid sequences compatible with a…
Sum Yi Cheong, Trevors In Zen Liew, Chee Kin Wong, Xue Xin Teng + 4 more
Lung-on-a-chip (LoAC) technology has emerged as a human-relevant microphysiological approach for respiratory disease modelling and preclinical drug evaluation. However, substantial variation in device architecture, membrane properties, fluidic conditions, mechanical actuation, cellular composition, sensing and…
Dianzhuo Wang, Qian Xu, Arjun Banerjee, Rishi Jain + 7 more
Inferring biological function from experimental data is central to understanding emerging pathogens and developing effective countermeasures, yet interpreting these data remains slow and expert-intensive. AI agents could help accelerate this process by reasoning across sequence, structural, and biophysical evidence. We…