What is meant by Gene Ontology?
The Gene Ontology (GO) provides a framework and set of concepts for describing the functions of gene products from all organisms. It is specifically designed for supporting the computational representation of biological systems.
What is the importance of UniProt?
UniProt facilitates scientific discovery by organizing biological knowledge and enabling researchers to rapidly comprehend complex areas of biology.
What type of database is UniProt?
UniProt is a freely accessible database of protein sequence and functional information, many entries being derived from genome sequencing projects. It contains a large amount of information about the biological function of proteins derived from the research literature.
Which tool is used for analysis of gene ontology?
GOnet: a tool for interactive Gene Ontology analysis.
What is ontology in bioinformatics?
Ontologies are a concept imported from computing science to describe different conceptual frameworks that guide the collection, organization and publication of biological data. An ontology is similar to a paradigm but has very strict implications for formatting and meaning in a computational context.
How does Gene Ontology enrichment work?
Gene Ontology (GO) term enrichment is a technique for interpreting sets of genes making use of the Gene Ontology system of classification, in which genes are assigned to a set of predefined bins depending on their functional characteristics.
Is UniProt a primary database?
Uniprot was originally formulated as a primary database for protein sequences and functional annotation based on experimental evidence. Nowadays it combines a network of sister databases centralising all levels of annotation produced for protein sequences.
What does enrichment score mean?
The enrichment score (ES) is the maximum deviation from zero encountered during that walk. The ES reflects the degree to which the genes in a gene set are overrepresented at the top or bottom of the entire ranked list of genes.
How do you read enrichment scores?
Interpretation of ES value:
- Higher the ES score, it more likely for a gene set to shift towards either end of the ranked list L.
- ES is a standard Kolmogorov Smirnov statistic, where p(a tuning parameter) = 0 means the fit is good and p = 1 means the fit is not good.
- Normalized Enrichment Score lies [0,1].
What is the UniProt RDF ontology?
The UniProt RDF schema ontology contains predicates used to describe UniProt entries and associated data. xsd:string Indicates the wavelength in nm at which photoreactive proteins such as opsins and DNA photolyases show maximal absorption. xsd:string
What is the Gene Ontology project?
The Gene Ontology (GO) project provides a set of hierarchical controlled vocabulary split into 3 categories: UniProtKB lists selected terms derived from the GO project.
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