14 papers · ranked by Valyu relevance
Ivan Specht, Soyoon Park, Seyone Chithrananda, Claudia L. Driscoll + 3 more
Viral mutation forecasting plays a key role in pandemic preparedness by enabling researchers to anticipate novel variants and design proactive interventions. Evolutionary histories, represented as phylogenetic trees, offer key insights into the emergence of past and present strains, yet their role in predicting future…
Konrad Karlsson
Individual encounter histories are central to capture–recapture models, but fisheries monitoring is often reduced to counts that do not account for variation in detection probability. This study presents a machine-vision workflow for converting long-term video surveillance of Atlantic salmon (Salmo salar) and sea trout…
Amrita Nagasuri, Umair Khan, Parker Grosjean, Adi Siddharth + 15 more
Endometriosis is a chronic inflammatory disease associated with pelvic pain, infertility, and delayed diagnosis. Growing evidence suggests that altered DNA methylation contributes to disease development and could serve as a biomarker for disease. We developed a leakage-safe machine learning pipeline to classify…
William JF Rieger, Sebastian Häussermann, Luca Herrmann, Zecheng Li + 8 more
Enzymes frequently exhibit promiscuous activity beyond their native roles, providing starting-points for new functions. Finding these promiscuous enzymes, especially for non-native chemical transformations, is challenging but highly valuable, as they promise novel, sustainable solutions for chemistry and biotechnology.…
Jordie Hoffman, Michael Gurven, Hillard Kaplan, Jonathan Stieglitz + 13 more
Computer vision models that estimate body mass index (BMI) from facial features offer a non-invasive, low-cost alternative to physical measurement, with uses in telemedicine, emergency care where a scale or measuring tools aren’t available, automated self-monitoring, and large-scale epidemiological research. Most of…
Matheus da Silveira Costa, Henrique Izaias Marcelo, Gabriel Albanese Kafouri, Vinicius de Camargo
Colorectal cancer (CRC) is a major cause of cancer-related mortality, with distant metastasis strongly associated with poor clinical outcomes. Integrating transcriptomic and epigenomic data through machine learning may improve the molecular characterization of metastatic CRC. We analyzed 518 primary tumors from the…
Maria B. Walter Costa, Rose Brouns, Maria Schreiber, Aristeidis Litos + 5 more
Understanding the adaptations of microorganisms to their environment is key to predicting the stability and dynamics of microbial communities. To uncover molecular mechanisms of environmental response, we extracted genomic features from 13,554 prokaryotic isolates, and trained machine learning models to identify which…
Florian Borse, Silvana Lord Smits, T. Anthony Sun, Johannes Cairns + 2 more
Previous research in microbes successfully predicted biculture growth based on monoculture growth curves. Still, the usual model-based approach does not seem to extend to communities involving more than two bacterial strains. Here, we use a model-blind machine-learning approach to predict community-wide yield, area…
Henrique Reis Aguiar, Matthias H. Hennig
Predictive coding is a powerful normative framework for understanding cortical computation, but it is still an open question how biologically plausible networks with local plasticity support predictive inference and representation learning. In this work we show that a recurrent excitatory-inhibitory circuit with purely…
Amélie Barozet, Vincent Cabeli, Jean Ogier du Terrail, Alexey Rukhovich + 6 more
The development of climate-resilient crops would be greatly accelerated by models able to reason directly over plant genomic sequences and to pinpoint trait-associated regions or loci. Anticipating the impact of DNA base changes (variants) remains challenging, and understanding regulatory mechanisms is still an active…
Yi Ren, Zimei Chen, Hayden Deans, Ying Nian Wu + 1 more
Extensive studies suggest the brain performs Bayesian inference to infer the latent world states. It is a fundamental neuroscience question that how canonical recurrent neural circuits in the brain implement Bayesian inference. Many existing theoretical studies focused on how the recurrent circuits compute the…
Priyanka Bhutada, Nitin Goyal, Tatsam K. Lakhankiya, Sai D. Narahari + 8 more
Artificial Intelligence (AI) frameworks for automating scientific research have shown strong performance on benchmarks, but their utility for real-world industrial research remains insufficiently characterized. Extending the analysis presented in the first paper of this series, we evaluated the same five advanced AI…
Francesco Carli, Polina Rusina, Lun Ai, Leonie Küchenhoff + 7 more
Language models and agents are increasingly used in biomedicine, but current benchmarks reward correct answers even when the underlying reasoning is flawed. Here we introduce Karenina, an open-source framework that turns expert knowledge into multi-dimensional evaluations of questions, conversations and autonomous…
Emily Cordeiro, Daniela Herrera Chaves, Nima Talei, Iván Castro + 6 more
Statistical learning (SL) has been proposed to depend on the hippocampus, but traditional neuropsychological theories of long-term memory posit that the hippocampus is only necessary for explicit memory processes, not implicit memory processes. To reconcile these two accounts, we exposed 27 temporal lobe epilepsy (TLE)…