Machine learning-based approaches for disease gene prediction.
Sign Up to like & getrecommendations! Published in 2020 at "Briefings in functional genomics"
DOI: 10.1093/bfgp/elaa013
Abstract: Disease gene prediction is an essential issue in biomedical research. In the early days, annotation-based approaches were proposed for this problem. With the development of high-throughput technologies, interaction data between genes/proteins have grown quickly and… read more here.
Keywords: machine learning; disease gene; gene prediction; disease genes ... See more keywords
Pathogenic gene prediction based on network embedding
Sign Up to like & getrecommendations! Published in 2021 at "Briefings in bioinformatics"
DOI: 10.1093/bib/bbaa353
Abstract: In disease research, the study of gene-disease correlation has always been an important topic. With the emergence of large-scale connected data sets in biology, we use known correlations between the entities, which may be from… read more here.
Keywords: pathogenic gene; network; prediction based; gene prediction ... See more keywords
NIDM: network impulsive dynamics on multiplex biological network for disease-gene prediction
Sign Up to like & getrecommendations! Published in 2021 at "Briefings in bioinformatics"
DOI: 10.1093/bib/bbab080
Abstract: The prediction of genes related to diseases is important to the study of the diseases due to high cost and time consumption of biological experiments. Network propagation is a popular strategy for disease-gene prediction. However,… read more here.
Keywords: disease gene; network; disease; gene prediction ... See more keywords
Evidence That Inconsistent Gene Prediction Can Mislead Analysis of Dinoflagellate Genomes
Sign Up to like & getrecommendations! Published in 2019 at "Journal of Phycology"
DOI: 10.1111/jpy.12947
Abstract: Comparative algal genomics often relies on predicted genes from de novo assembled genomes. However, the artifacts introduced by different gene‐prediction approaches, and their impact on comparative genomic analysis remain poorly understood. Here, using available genome… read more here.
Keywords: gene; analysis dinoflagellate; gene prediction;
Computational discovery and annotation of conserved small open reading frames in fungal genomes
Sign Up to like & getrecommendations! Published in 2018 at "BMC Bioinformatics"
DOI: 10.1186/s12859-018-2550-2
Abstract: BackgroundSmall open reading frames (smORF/sORFs) that encode short protein sequences are often overlooked during the standard gene prediction process thus leading to many sORFs being left undiscovered and/or misannotated. For many genomes, a second round… read more here.
Keywords: reading frames; gene prediction; annotation; fungal genomes ... See more keywords
GPRED-GC: a Gene PREDiction model accounting for 5 ′- 3′ GC gradient
Sign Up to like & getrecommendations! Published in 2019 at "BMC Bioinformatics"
DOI: 10.1186/s12859-019-3047-3
Abstract: Gene is a key step in genome annotation. Ab initio gene prediction enables gene annotation of new genomes regardless of availability of homologous sequences. There exist a number of ab initio gene prediction tools and… read more here.
Keywords: highly variable; gene prediction; model; gradient ... See more keywords
Feature selection for gene prediction in metagenomic fragments
Sign Up to like & getrecommendations! Published in 2018 at "BioData Mining"
DOI: 10.1186/s13040-018-0170-z
Abstract: BackgroundComputational approaches, specifically machine-learning techniques, play an important role in many metagenomic analysis algorithms, such as gene prediction. Due to the large feature space, current de novo gene prediction algorithms use different combinations of classification… read more here.
Keywords: gene; selection gene; feature selection; gene prediction ... See more keywords
Disease-gene prediction based on preserving structure network embedding
Sign Up to like & getrecommendations! Published in 2023 at "Frontiers in Aging Neuroscience"
DOI: 10.3389/fnagi.2023.1061892
Abstract: Many diseases, such as Alzheimer's disease (AD) and Parkinson's disease (PD), are caused by abnormalities or mutations of related genes. Many computational methods based on the network relationship between diseases and genes have been proposed… read more here.
Keywords: disease; network; disease gene; gene prediction ... See more keywords
MOSES: A New Approach to Integrate Interactome Topology and Functional Features for Disease Gene Prediction
Sign Up to like & getrecommendations! Published in 2021 at "Genes"
DOI: 10.3390/genes12111713
Abstract: Disease gene prediction is to date one of the main computational challenges of precision medicine. It is still uncertain if disease genes have unique functional properties that distinguish them from other non-disease genes or, from… read more here.
Keywords: disease gene; disease; gene prediction; topology ... See more keywords