Functional classification and gene ontology category
AN ONTOLOGY OF CLASSIFICATION CRITERIA FOR FUNCTIONAL TAXONOMIES
... between functional taxonomies can improve interoperability of functional ...the functional terms in the query and the metadata annotated with documents, the search system can access both documents ...
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GOToolBox: functional analysis of gene datasets based on Gene Ontology
... the gene content of different organisms, leading to the conclusion that organisms share the majority of their genes with only rela- tively few species-specific ...infer gene annotations from model spe- cies ...
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Ontological Realism and Classification: Structures and Concepts in the Gene Ontology
... However, the analyses reported illustrate some, perhaps unexpected, features, which apply to all the scientific ontologies of which it is an exemplar. Although the GO is explicitly based in a realistic and objective ...
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Guidelines for the functional annotation of microRNAs using the Gene Ontology
... of gene expression by miRNAs, from their initial transcription to their roles in gene silencing, we first make recommendations for the curation of the protein compo- nents of the canonical miRNA biogenesis ...
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Evaluating Functional Annotations of Enzymes Using the Gene Ontology.
... conserved functional attributes such as a partial reaction or molecular subgraph that all substrates or products may have in ...of functional features to unknowns only for those members for which we have ...
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SoFoCles: Feature filtering for microarray classification based on Gene Ontology
... of gene groups ...same Gene Ontology cate- gory) that are used for the classification task instead of selecting individual problem-specific genes [31] ..., gene expression data were classified ...
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The classification of gene products in the molecular biology domain: Realism, objectivity, and the limitations of the Gene Ontology
... The Gene Ontology’s dependency on electronically inferred annotations based on sequence analysis mirrors Rudwick’s problem of accommodating a teleological perspective when interpreting the fossil ...the ...
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A simulation to analyze feature selection methods utilizing gene ontology for gene expression classification
... t Gene expression profile classification is a pivotal research domain assisting in the transformation from traditional to personalized ...with gene expression data classifica- tion is the small number of ...
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Investigating “Gene Ontology”- based semantic similarity in the context of functional genomics
... and functional) would be sufficient to create fairly discrete ...related gene products are often related on multiple features, either in the same sub-ontology or in different ontologies, ...two ...
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Novel approaches to biclustering and gene functional classification in microarray gene expression data
... ental functional u n its of living organism s, th e genes and th e proteins th ey encode, and our focus is now on identifying and elucidating their individual ...g gene fu n ctio n a l modules (groups of ...
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Ontological realism, concepts and classification in molecular biology: Development and application of the gene ontology
... an ontology request from any quarter, be it Ontology Editors or Naive Users, is given consideration for admittance to the ontology ...in ontology request ...
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Primer on the Gene Ontology.
... for functional annotation; we show how a struc- tured vocabulary is used in the context of controlled clinical termi- nologies; and we present how information from different structured vocabularies is integrated ...
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A Hybrid Gene Selection Method for Multi-category Tumor Classification using Microarray Data
... hybrid gene selection strategy aiming to take advantage from the combination of different gene selection ...a gene pool, and a genetic algorithm further explores the search space for reduced ...
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Logical Gene Ontology Annotations (GOAL): exploring gene ontology annotations with OWL
... of gene product functional attributes, location with phenotype and disease phenomena, such as linking together proteolysis, insulin secretion, plasma membrane, increased glucose concentration and diabetes, ...
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The Gene Ontology: enhancements for 2011
... ‘annotate’ gene products ...a gene product and a term from one of the structured, controlled vocabularies that describe how and where gene products ...containing functional in- formation for ...
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Semantic Similarity in the Gene Ontology
... the gene product similarity level, and in particular for pair- wise measures, special care needs to be taken when choosing a com- bination ...two gene products, produces counterintuitive results for ...
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Measuring the evolution of ontology complexity: the gene ontology case study
... The parallel evolution of the GO and of annotations databases has consequences on the results of data analysis studies [37] as well as on the evaluation of GO-based data analysis methods [38–40]. Gillis et al. reported ...
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An Ontology for Carcinoma Classification for Clinical Bioinformatics
... reference ontology can be used to support the drawing of inferences relating to the anatomical and pathological data present within the EHRs of individual ...own ontology of relations we integrated terms in ...
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Ontology-Based MEDLINE Document Classification
... The Gene Ontology is an example of taxonomy that provide ontology-based description of gene records in model organism data- ...bases. Ontology-based representation extension can also be ...
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Fuzzy measures on the Gene Ontology for gene product similarity
... the Gene Ontology for Gene Product Similarity Mihail Popescu, James ...a gene product (protein or RNA). For many gene products, functional information is summarized in a set of ...
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