AIMC Topic: Computational Biology

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An ensemble learning framework for potential miRNA-disease association prediction with positive-unlabeled data.

Computational biology and chemistry
To explore the pathogenic mechanisms of MicroRNA (miRNA) on diverse diseases, many researchers have concentrated on discovering the potential associations between miRNA and disease using machine learning methods. However, the prediction accuracy of s...

PRPI-SC: an ensemble deep learning model for predicting plant lncRNA-protein interactions.

BMC bioinformatics
BACKGROUND: Plant long non-coding RNAs (lncRNAs) play vital roles in many biological processes mainly through interactions with RNA-binding protein (RBP). To understand the function of lncRNAs, a fundamental method is to identify which types of prote...

Protein inter-residue contact and distance prediction by coupling complementary coevolution features with deep residual networks in CASP14.

Proteins
This article reports and analyzes the results of protein contact and distance prediction by our methods in the 14th Critical Assessment of techniques for protein Structure Prediction (CASP14). A new deep learning-based contact/distance predictor was ...

Imaging and artificial intelligence for progression of age-related macular degeneration.

Experimental biology and medicine (Maywood, N.J.)
Age-related macular degeneration (AMD) is a leading cause of severe vision loss. With our aging population, it may affect 288 million people globally by the year 2040. AMD progresses from an early and intermediate dry form to an advanced one, which m...

Multilevel Strip Pooling-Based Convolutional Neural Network for the Classification of Carotid Plaque Echogenicity.

Computational and mathematical methods in medicine
Carotid plaque echogenicity in ultrasound images has been found to be closely correlated with the risk of stroke in atherosclerotic patients. The automatic and accurate classification of carotid plaque echogenicity is of great significance for clinic...

Protein tertiary structure prediction and refinement using deep learning and Rosetta in CASP14.

Proteins
The trRosetta structure prediction method employs deep learning to generate predicted residue-residue distance and orientation distributions from which 3D models are built. We sought to improve the method by incorporating as inputs (in addition to se...

Chromatin interaction neural network (ChINN): a machine learning-based method for predicting chromatin interactions from DNA sequences.

Genome biology
Chromatin interactions play important roles in regulating gene expression. However, the availability of genome-wide chromatin interaction data is limited. We develop a computational method, chromatin interaction neural network (ChINN), to predict chr...

A strategy for mapping biophysical to abstract neuronal network models applied to primary visual cortex.

PLoS computational biology
A fundamental challenge for the theoretical study of neuronal networks is to make the link between complex biophysical models based directly on experimental data, to progressively simpler mathematical models that allow the derivation of general opera...

The "GEnomics of Musculo Skeletal Traits TranslatiOnal NEtwork": Origins, Rationale, Organization, and Prospects.

Frontiers in endocrinology
Musculoskeletal research has been enriched in the past ten years with a great wealth of new discoveries arising from genome wide association studies (GWAS). In addition to the novel factors identified by GWAS, the advent of whole-genome and whole-exo...

Classification Framework for Healthy Hairs and Alopecia Areata: A Machine Learning (ML) Approach.

Computational and mathematical methods in medicine
Alopecia areata is defined as an autoimmune disorder that results in hair loss. The latest worldwide statistics have exhibited that alopecia areata has a prevalence of 1 in 1000 and has an incidence of 2%. Machine learning techniques have demonstrate...