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Mutation

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Histological interpretation of spitzoid tumours: an extensive machine learning-based concordance analysis for improving decision making.

Histopathology
The histopathological classification of melanocytic tumours with spitzoid features remains a challenging task. We confront the complexities involved in the histological classification of these tumours by proposing machine learning (ML) algorithms tha...

Identification of KRAS mutation-associated gut microbiota in colorectal cancer and construction of predictive machine learning model.

Microbiology spectrum
Gut microbiota has demonstrated an increasingly important role in the onset and development of colorectal cancer (CRC). Nonetheless, the association between gut microbiota and KRAS mutation in CRC remains enigmatic. We conducted 16S rRNA sequencing o...

Real-World Outcomes of Patients with Advanced Epidermal Growth Factor Receptor-Mutated Non-Small Cell Lung Cancer in Canada Using Data Extracted by Large Language Model-Based Artificial Intelligence.

Current oncology (Toronto, Ont.)
Real-world evidence for patients with advanced -mutated non-small cell lung cancer (NSCLC) in Canada is limited. This study's objective was to use previously validated DARWEN artificial intelligence (AI) to extract data from electronic heath records ...

Deceptive learning in histopathology.

Histopathology
AIMS: Deep learning holds immense potential for histopathology, automating tasks that are simple for expert pathologists and revealing novel biology for tasks that were previously considered difficult or impossible to solve by eye alone. However, the...

Self-replicating artificial neural networks give rise to universal evolutionary dynamics.

PLoS computational biology
In evolutionary models, mutations are exogenously introduced by the modeler, rather than endogenously introduced by the replicator itself. We present a new deep-learning based computational model, the self-replicating artificial neural network (SeRAN...

Flattening the curve-How to get better results with small deep-mutational-scanning datasets.

Proteins
Proteins are used in various biotechnological applications, often requiring the optimization of protein properties by introducing specific amino-acid exchanges. Deep mutational scanning (DMS) is an effective high-throughput method for evaluating the ...

Identification of Genomic Signatures for Colorectal Cancer Survival Using Exploratory Data Mining.

International journal of molecular sciences
Clinicopathological presentations are critical for establishing a postoperative treatment regimen in Colorectal Cancer (CRC), although the prognostic value is low in Stage 2 CRC. We implemented a novel exploratory algorithm based on artificial intell...

DeePNAP: A Deep Learning Method to Predict Protein-Nucleic Acid Binding Affinity from Their Sequences.

Journal of chemical information and modeling
Predicting the protein-nucleic acid (PNA) binding affinity solely from their sequences is of paramount importance for the experimental design and analysis of PNA interactions (PNAIs). A large number of currently developed models for binding affinity ...

Machine learning to predict continuous protein properties from binary cell sorting data and map unseen sequence space.

Proceedings of the National Academy of Sciences of the United States of America
Proteins are a diverse class of biomolecules responsible for wide-ranging cellular functions, from catalyzing reactions to recognizing pathogens. The ability to evolve proteins rapidly and inexpensively toward improved properties is a common objectiv...

Enhancing Generalizability in Protein-Ligand Binding Affinity Prediction with Multimodal Contrastive Learning.

Journal of chemical information and modeling
Improving the generalization ability of scoring functions remains a major challenge in protein-ligand binding affinity prediction. Many machine learning methods are limited by their reliance on single-modal representations, hindering a comprehensive ...