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Genomics

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Prediction of enzymatic function with high efficiency and a reduced number of features using genetic algorithm.

Computers in biology and medicine
The post-genomic era has raised a growing demand for efficient procedures to identify protein functions, which can be accomplished by applying machine learning to the characteristics set extracted from the protein. This approach is feature-based and ...

New proposal of viral genome representation applied in the classification of SARS-CoV-2 with deep learning.

BMC bioinformatics
BACKGROUND: In December 2019, the first case of COVID-19 was described in Wuhan, China, and by July 2022, there were already 540 million confirmed cases. Due to the rapid spread of the virus, the scientific community has made efforts to develop techn...

A hybrid deep learning approach for COVID-19 detection based on genomic image processing techniques.

Scientific reports
The coronavirus disease 2019 (COVID-19) pandemic has been spreading quickly, threatening the public health system. Consequently, positive COVID-19 cases must be rapidly detected and treated. Automatic detection systems are essential for controlling t...

Towards artificial intelligence to multi-omics characterization of tumor heterogeneity in esophageal cancer.

Seminars in cancer biology
Esophageal cancer is a unique and complex heterogeneous malignancy, with substantial tumor heterogeneity: at the cellular levels, tumors are composed of tumor and stromal cellular components; at the genetic levels, they comprise genetically distinct ...

Artificial intelligence and high-dimensional technologies in the theragnosis of systemic lupus erythematosus.

The Lancet. Rheumatology
Systemic lupus erythematosus is a complex, systemic autoimmune disease characterised by immune dysregulation. Pathogenesis is multifactorial, contributing to clinical heterogeneity and posing challenges for diagnosis and treatment. Although strides i...

Machine learning classifiers predict key genomic and evolutionary traits across the kingdoms of life.

Scientific reports
In this study, we investigate how an organism's codon usage bias can serve as a predictor and classifier of various genomic and evolutionary traits across the domains of life. We perform secondary analysis of existing genetic datasets to build severa...

Evaluation of the portability of computable phenotypes with natural language processing in the eMERGE network.

Scientific reports
The electronic Medical Records and Genomics (eMERGE) Network assessed the feasibility of deploying portable phenotype rule-based algorithms with natural language processing (NLP) components added to improve performance of existing algorithms using el...

Detecting genomic deletions from high-throughput sequence data with unsupervised learning.

BMC bioinformatics
BACKGROUND: Structural variation (SV), which ranges from 50 bp to [Formula: see text] 3 Mb in size, is an important type of genetic variations. Deletion is a type of SV in which a part of a chromosome or a sequence of DNA is lost during DNA replicati...

Deep learning in regulatory genomics: from identification to design.

Current opinion in biotechnology
Genomics and deep learning are a natural match since both are data-driven fields. Regulatory genomics refers to functional noncoding DNA regulating gene expression. In recent years, deep learning applications on regulatory genomics have achieved rema...

From research cohorts to the patient - a role for "omics" in diagnostics and laboratory medicine?

Clinical chemistry and laboratory medicine
Human pathologies are complex and might benefit from a more holistic diagnostic approach than currently practiced. Omics is a concept in biological research that aims to comprehensively characterize and quantify large numbers of biological molecules ...