Optimizing gene set annotations combining GO structure and gene expression data
نویسندگان
چکیده
منابع مشابه
Inferring gene annotations in Gene Ontology from gene expression data
Motivation: The Gene Ontology (GO) project develops a standard way to describe gene products in terms of their associated biological processes, cellular components and molecular functions. However, it is far from complete. Due to lacking biological knowledge or other technical difficulties, many gene products do not have GO annotations, and the annotations for many other gene products are not s...
متن کاملAssigning new GO annotations to protein data bank sequences by combining structure and sequence homology.
Accompanying the discovery of an increasing number of proteins, there is the need to provide functional annotation that is both highly accurate and consistent. The Gene Ontology (GO) provides consistent annotation in a computer readable and usable form; hence, GO annotation (GOA) has been assigned to a large number of protein sequences based on direct experimental evidence and through inference...
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Background: DNA microarray is a useful technology that simultaneously assesses the expression of thousands of genes. It can be utilized for the detection of cancer types and cancer biomarkers. This study aimed to predict blood cancer using leukemia gene expression data and a robust ℓ2,p-norm sparsity-based gene selection method. Materials and Methods: In this descriptive study, the microarray ...
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Gene set analysis methods, which consider predefined groups of genes in the analysis of genomic data, have been successfully applied for analyzing gene expression data in cross-sectional studies. The time-course gene set analysis (TcGSA) introduced here is an extension of gene set analysis to longitudinal data. The proposed method relies on random effects modeling with maximum likelihood estima...
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MOTIVATION The result of a typical microarray experiment is a long list of genes with corresponding expression measurements. This list is only the starting point for a meaningful biological interpretation. Modern methods identify relevant biological processes or functions from gene expression data by scoring the statistical significance of predefined functional gene groups, e.g. based on Gene O...
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ژورنال
عنوان ژورنال: BMC Systems Biology
سال: 2018
ISSN: 1752-0509
DOI: 10.1186/s12918-018-0659-6