AIMC Topic: Computational Biology

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Identification of diagnostic signatures in ulcerative colitis patients via bioinformatic analysis integrated with machine learning.

Human cell
Ulcerative colitis (UC) is an immune-related disorder with enhanced prevalence globally. Early diagnosis is critical for the effective treatment of UC. However, it still lacks specific diagnostic signatures. The aim of our study was to explore effici...

A Feature Fusion Predictor for RNA Pseudouridine Sites with Particle Swarm Optimizer Based Feature Selection and Ensemble Learning Approach.

Current issues in molecular biology
RNA pseudouridine modification is particularly important in a variety of cellular biological and physiological processes. It plays a significant role in understanding RNA functions, RNA structure stabilization, translation processes, etc. To understa...

Improved Protein Structure Prediction Using a New Multi-Scale Network and Homologous Templates.

Advanced science (Weinheim, Baden-Wurttemberg, Germany)
The accuracy of de novo protein structure prediction has been improved considerably in recent years, mostly due to the introduction of deep learning techniques. In this work, trRosettaX, an improved version of trRosetta for protein structure predicti...

Deep Learning in Cancer Diagnosis and Prognosis Prediction: A Minireview on Challenges, Recent Trends, and Future Directions.

Computational and mathematical methods in medicine
Deep learning (DL) is a branch of machine learning and artificial intelligence that has been applied to many areas in different domains such as health care and drug design. Cancer prognosis estimates the ultimate fate of a cancer subject and provides...

The AlphaFold Database of Protein Structures: A Biologist's Guide.

Journal of molecular biology
AlphaFold, the deep learning algorithm developed by DeepMind, recently released the three-dimensional models of the whole human proteome to the scientific community. Here we discuss the advantages, limitations and the still unsolved challenges of the...

Protein Design with Deep Learning.

International journal of molecular sciences
Computational Protein Design (CPD) has produced impressive results for engineering new proteins, resulting in a wide variety of applications. In the past few years, various efforts have aimed at replacing or improving existing design methods using De...

Image Enhancement Model Based on Deep Learning Applied to the Ureteroscopic Diagnosis of Ureteral Stones during Pregnancy.

Computational and mathematical methods in medicine
OBJECTIVE: To explore the image enhancement model based on deep learning on the effect of ureteroscopy with double J tube placement and drainage on ureteral stones during pregnancy. We compare the clinical effect of ureteroscopy with double J tube pl...

Screening of key biomarkers of tendinopathy based on bioinformatics and machine learning algorithms.

PloS one
Tendinopathy is a complex multifaceted tendinopathy often associated with overuse and with its high prevalence resulting in significant health care costs. At present, the pathogenesis and effective treatment of tendinopathy are still not sufficiently...

Crowdsourcing biocuration: The Community Assessment of Community Annotation with Ontologies (CACAO).

PLoS computational biology
Experimental data about gene functions curated from the primary literature have enormous value for research scientists in understanding biology. Using the Gene Ontology (GO), manual curation by experts has provided an important resource for studying ...

Deep learning in target prediction and drug repositioning: Recent advances and challenges.

Drug discovery today
Drug repositioning is an attractive strategy for discovering new therapeutic uses for approved or investigational drugs, with potentially shorter development timelines and lower development costs. Various computational methods have been used in drug ...