Gene Ontology Terms Analysis
Associating Gene Ontology Terms with Pfam Protein Domains
... Statistical Analysis While the above procedure provides a systematic way to infer GO-Pfam asso- ciations, we wished to estimate the statistical significance, and thus the degree of confidence, that might be ...
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Searching the gene ontology terms using semantic similarity measure
... the Gene Ontology is the ...of gene products that are shareable and computationally accessible by humans, software agent, or other machine-readable ...other terms. This information has made ...
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GO2PUB: Querying PubMed with semantic expansion of gene ontology terms
... GO terms of interest or a descendant of these GO terms yields some relevant articles ignored by other ...The analysis of the randomly-generated queries suggests that the results obtained about lipid ...
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Exercise 6: Gene Ontology Analysis
... GO terms in your BiNGO graph, which terms relate to galactose utilization in general, and which relate to your sub-network specifically? Here, we shall see how to answer that ...
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Research Article Analysis of Important Gene Ontology Terms and Biological Pathways Related to Pancreatic Cancer
... important gene ontology (GO) terms and KEGG pathways for pancreatic cancer by adopting some existing computational ...GO terms and KEGG pathways using the enrichment ...GO terms and ...
Dependence Relationships between Gene Ontology Terms based on TIGR Gene Product Annotations
... consideration 4.2 Association rule induction Association rule induction was originally developed for so-called market basket analysis, which aims at finding regularities in the shopping behaviour of customers of ...
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GOToolBox: functional analysis of gene datasets based on Gene Ontology
... a gene-to-gene distance calculation based on several GO terms allows the determination of classes consisting of functionally related ...user-defined gene on the basis of related GO ...
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Applying Gene Ontology to Microarray Gene Expression Data Analysis
... mapping gene pairs identified with DTW distance is gathered, we then add GO information into our ...annotation terms which are defined based on biological functions or attributes for the genes or proteins ...
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Applicability of semi-supervised learning assumptions for gene ontology terms prediction
... for gene ontology terms prediction ABSTRACT: Gene Ontology (GO) is one of the most important resources in bioinformatics, aiming to provide a unified framework for the biological ...
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Incorporating semantic similarity measure in genetic algorithm: an approach for searching the gene ontology terms
... the Gene Ontology is the ...of gene products that are shareable and computationally accessible by humans, software agent, or other machine-readable ...other terms. This information has made ...
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Globaltest and GOEAST: two different approaches for Gene Ontology analysis
... GO terms were identified in the three contrasts ...GO terms were found within the small number of differentially expressed genes in the contrast MM8-MA8 (Table ...GO terms consisted of just 1 or 2 ...
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Gene ontology analysis for RNA seq: accounting for selection bias
... GO analysis of microarray expression data has so far ignored the possibility of selection bias, but such bias clearly does ...the analysis is conducted ...GO analysis of microarray data, and would ...
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FFPred 2.0: Improved Homology-Independent Prediction of Gene Ontology Terms for Eukaryotic Protein Sequences
... the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are ...and analysis, decision to ...
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Exploring autophagy with Gene Ontology.
... the ontology as they are studied and the terms are required for ...GO terms, and the alignment of autophagy representation in GO with other bioinformatics resources, such as Reactome 45 and PD-map, ...
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Semantic Similarity in the Gene Ontology
... whereby terms are assigned val- ues according to their distance to the root and the number of descendants for each of the levels in that path, and then similarity corresponds to the smallest sum of “totipotencies” ...
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A Gene Ontology Tutorial in Python.
... entire Gene Ontology structure; only the information required is ...particular terms are involved in an ...many terms, the file-based approach described above is more ...
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Gene Ontology Analysis of 3D Microarray Gene Expression Data using Hybrid PSO Optimization
... of Gene Ontology (GO) terms is 7166. Displaying 80 terms out of a total of 1573 ...using gene ontology is depicted in figure ...
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Measuring the evolution of ontology complexity: the gene ontology case study
... and analysis of life sciences ...an ontology evolution on its structural ...the Gene Ontology and its three independent branches, ...an ontology does not provide enough information ...
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Contextual analysis of variation and quality in human-curated gene ontology annotations
... MP2 example calculated above, for example, the MOD representatives may have expert knowledge (or other reasons) that caused them to select the broader term ‘response to stress’ rather than the more granular terms ...
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Argot2: a large scale function prediction tool relying on semantic similarity of weighted Gene Ontology terms
... 14. Conesa A, Gotz S: Blast2GO:A comprehensive suite for functional analysis in plant genomics. International Journal of Plant Genomics 2008, 2008: Article ID 619832. 15. Velasco R, Zharkikh A, Troggio M, ...
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