AIMC Topic: Computational Biology

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Adaptive multi-view multi-label learning for identifying disease-associated candidate miRNAs.

PLoS computational biology
Increasing evidence has indicated that microRNAs(miRNAs) play vital roles in various pathological processes and thus are closely related with many complex human diseases. The identification of potential disease-related miRNAs offers new opportunities...

Selene: a PyTorch-based deep learning library for sequence data.

Nature methods
To enable the application of deep learning in biology, we present Selene (https://selene.flatironinstitute.org/), a PyTorch-based deep learning library for fast and easy development, training, and application of deep learning model architectures for ...

Predicting EGFR mutation status in lung adenocarcinoma on computed tomography image using deep learning.

The European respiratory journal
Epidermal growth factor receptor (EGFR) genotyping is critical for treatment guidelines such as the use of tyrosine kinase inhibitors in lung adenocarcinoma. Conventional identification of EGFR genotype requires biopsy and sequence testing which is i...

GO functional similarity clustering depends on similarity measure, clustering method, and annotation completeness.

BMC bioinformatics
BACKGROUND: Biological knowledge, and therefore Gene Ontology annotation sets, for human genes is incomplete. Recent studies have reported that biases in available GO annotations result in biased estimates of functional similarities of genes, but it ...

Deep Collaborative Filtering for Prediction of Disease Genes.

IEEE/ACM transactions on computational biology and bioinformatics
Accurate prioritization of potential disease genes is a fundamental challenge in biomedical research. Various algorithms have been developed to solve such problems. Inductive Matrix Completion (IMC) is one of the most reliable models for its well-est...

Non-invasive assessment of NAFLD as systemic disease-A machine learning perspective.

PloS one
BACKGROUND & AIMS: Current non-invasive scores for the assessment of severity of non-alcoholic fatty liver disease (NAFLD) and identification of patients with non-alcoholic steatohepatitis (NASH) have insufficient performance to be included in clinic...

Predicting drug-target interaction network using deep learning model.

Computational biology and chemistry
BACKGROUND: Traditional methods for drug discovery are time-consuming and expensive, so efforts are being made to repurpose existing drugs. To find new ways for drug repurposing, many computational approaches have been proposed to predict drug-target...

Advancing Computational Toxicology in the Big Data Era by Artificial Intelligence: Data-Driven and Mechanism-Driven Modeling for Chemical Toxicity.

Chemical research in toxicology
In 2016, the Frank R. Lautenberg Chemical Safety for the 21st Century Act became the first US legislation to advance chemical safety evaluations by utilizing novel testing approaches that reduce the testing of vertebrate animals. Central to this miss...

Automatic diagnosis of neurological diseases using MEG signals with a deep neural network.

Scientific reports
The application of deep learning to neuroimaging big data will help develop computer-aided diagnosis of neurological diseases. Pattern recognition using deep learning can extract features of neuroimaging signals unique to various neurological disease...

Artificial intelligence in cytopathology: a review of the literature and overview of commercial landscape.

Journal of the American Society of Cytopathology
Artificial intelligence (AI) has made impressive strides recently in interpreting complex images, thanks to improvements in deep learning techniques and increasing computational power. Researchers have started applying these advanced techniques to pa...