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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 ...

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 ...

A multi hidden recurrent neural network with a modified grey wolf optimizer.

PloS one
Identifying university students' weaknesses results in better learning and can function as an early warning system to enable students to improve. However, the satisfaction level of existing systems is not promising. New and dynamic hybrid systems are...

Application of deep learning-based computer-aided detection system: detecting pneumothorax on chest radiograph after biopsy.

European radiology
OBJECTIVES: To retrospectively evaluate the diagnostic performance of a convolutional neural network (CNN) model in detecting pneumothorax on chest radiographs obtained after percutaneous transthoracic needle biopsy (PTNB) for pulmonary lesions.

A dense multi-path decoder for tissue segmentation in histopathology images.

Computer methods and programs in biomedicine
BACKGROUND AND OBJECTIVE: Segmenting different tissue components in histopathological images is of great importance for analyzing tissues and tumor environments. In recent years, an encoder-decoder family of convolutional neural networks has increasi...

A combined drug discovery strategy based on machine learning and molecular docking.

Chemical biology & drug design
Data mining methods based on machine learning play an increasingly important role in drug design and discovery. In the current work, eight machine learning methods including decision trees, k-Nearest neighbor, support vector machines, random forests,...