AIMC Topic: Software

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BioEncoder: A metric learning toolkit for comparative organismal biology.

Ecology letters
In the realm of biological image analysis, deep learning (DL) has become a core toolkit, for example for segmentation and classification. However, conventional DL methods are challenged by large biodiversity datasets characterized by unbalanced class...

EFG-CS: Predicting chemical shifts from amino acid sequences with protein structure prediction using machine learning and deep learning models.

Protein science : a publication of the Protein Society
Nuclear magnetic resonance (NMR) crystallography is one of the main methods in structural biology for analyzing protein stereochemistry and structure. The chemical shift of the resonance frequency reflects the effect of the protons in a molecule prod...

Cumulus: a federated electronic health record-based learning system powered by Fast Healthcare Interoperability Resources and artificial intelligence.

Journal of the American Medical Informatics Association : JAMIA
OBJECTIVE: To address challenges in large-scale electronic health record (EHR) data exchange, we sought to develop, deploy, and test an open source, cloud-hosted app "listener" that accesses standardized data across the SMART/HL7 Bulk FHIR Access app...

INTREPPPID-an orthologue-informed quintuplet network for cross-species prediction of protein-protein interaction.

Briefings in bioinformatics
An overwhelming majority of protein-protein interaction (PPI) studies are conducted in a select few model organisms largely due to constraints in time and cost of the associated 'wet lab' experiments. In silico PPI inference methods are ideal tools t...

BioM2: biologically informed multi-stage machine learning for phenotype prediction using omics data.

Briefings in bioinformatics
Navigating the complex landscape of high-dimensional omics data with machine learning models presents a significant challenge. The integration of biological domain knowledge into these models has shown promise in creating more meaningful stratificati...

BPP: a platform for automatic biochemical pathway prediction.

Briefings in bioinformatics
A biochemical pathway consists of a series of interconnected biochemical reactions to accomplish specific life activities. The participating reactants and resultant products of a pathway, including gene fragments, proteins, and small molecules, coale...

MetaPredictor: in silico prediction of drug metabolites based on deep language models with prompt engineering.

Briefings in bioinformatics
Metabolic processes can transform a drug into metabolites with different properties that may affect its efficacy and safety. Therefore, investigation of the metabolic fate of a drug candidate is of great significance for drug discovery. Computational...

[Application of the blastomere count variations "skip value" in the embryo AI assessment].

Zhonghua fu chan ke za zhi
To explore the correlation between blastomere count variations "skip value" which extracted from by time-lapse technology (TLT) combined with artificial intelligence (AI) and morphological features of in vitro fertilization (IVF) embryo, and to test...

Precision Nutrition Management in Continuous Care: Leveraging AI for User-Reported Dietary Data Analysis.

Studies in health technology and informatics
A As health technology advances, this study aims to develop an innovative nutritional intake management system that integrates artificial intelligence technology and social media software to achieve precise analysis of patient-generated data and comp...