AIMC Topic: Computational Biology

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A Novel Medical Image Denoising Method Based on Conditional Generative Adversarial Network.

Computational and mathematical methods in medicine
Medical image quality is highly relative to clinical diagnosis and treatment, leading to a popular research topic of medical image denoising. Image denoising based on deep learning methods has attracted considerable attention owing to its excellent a...

AI for the collective analysis of a massive number of genome sequences: various examples from the small genome of pandemic SARS-CoV-2 to the human genome.

Genes & genetic systems
In genetics and related fields, huge amounts of data, such as genome sequences, are accumulating, and the use of artificial intelligence (AI) suitable for big data analysis has become increasingly important. Unsupervised AI that can reveal novel know...

Mapping the glycosyltransferase fold landscape using interpretable deep learning.

Nature communications
Glycosyltransferases (GTs) play fundamental roles in nearly all cellular processes through the biosynthesis of complex carbohydrates and glycosylation of diverse protein and small molecule substrates. The extensive structural and functional diversifi...

XENet: Using a new graph convolution to accelerate the timeline for protein design on quantum computers.

PLoS computational biology
Graph representations are traditionally used to represent protein structures in sequence design protocols in which the protein backbone conformation is known. This infrequently extends to machine learning projects: existing graph convolution algorith...

Machine Learning: An Overview and Applications in Pharmacogenetics.

Genes
This narrative review aims to provide an overview of the main Machine Learning (ML) techniques and their applications in pharmacogenetics (such as antidepressant, anti-cancer and warfarin drugs) over the past 10 years. ML deals with the study, the de...

Deep_CNN_LSTM_GO: Protein function prediction from amino-acid sequences.

Computational biology and chemistry
Protein amino acid sequences can be used to determine the functions of the protein. However, determining the function of a single protein requires many resources and a tremendous amount of time. Computational Intelligence methods such as Deep learnin...

When homologous sequences meet structural decoys: Accurate contact prediction by tFold in CASP14-(tFold for CASP14 contact prediction).

Proteins
In this paper, we report our tFold framework's performance on the inter-residue contact prediction task in the 14th Critical Assessment of protein Structure Prediction (CASP14). Our tFold framework seamlessly combines both homologous sequences and st...

Protein Abundance Prediction Through Machine Learning Methods.

Journal of molecular biology
Proteins are responsible for most physiological processes, and their abundance provides crucial information for systems biology research. However, absolute protein quantification, as determined by mass spectrometry, still has limitations in capturing...

A novel lncRNA-protein interaction prediction method based on deep forest with cascade forest structure.

Scientific reports
Long noncoding RNAs (lncRNAs) regulate many biological processes by interacting with corresponding RNA-binding proteins. The identification of lncRNA-protein Interactions (LPIs) is significantly important to well characterize the biological functions...

Partitioning variability in animal behavioral videos using semi-supervised variational autoencoders.

PLoS computational biology
Recent neuroscience studies demonstrate that a deeper understanding of brain function requires a deeper understanding of behavior. Detailed behavioral measurements are now often collected using video cameras, resulting in an increased need for comput...