Methods in molecular biology (Clifton, N.J.)
Jan 1, 2017
The Evidence and Conclusion Ontology (ECO) is a community resource for describing the various types of evidence that are generated during the course of a scientific study and which are typically used to support assertions made by researchers. ECO des...
Methods in molecular biology (Clifton, N.J.)
Jan 1, 2017
The specificity of knowledge that Gene Ontology (GO) annotations currently can represent is still restricted by the legacy format of the GO annotation file, a format intentionally designed for simplicity to keep the barriers to entry low and thus enc...
Methods in molecular biology (Clifton, N.J.)
Jan 1, 2017
Contemporary techniques in biology produce readouts for large numbers of genes simultaneously, the typical example being differential gene expression measurements. Moreover, those genes are often richly annotated using GO terms that describe gene fun...
Methods in molecular biology (Clifton, N.J.)
Jan 1, 2017
The Gene Ontology (GO) is a formidable resource, but there are several considerations about it that are essential to understand the data and interpret it correctly. The GO is sufficiently simple that it can be used without deep understanding of its s...
Methods in molecular biology (Clifton, N.J.)
Jan 1, 2017
The Gene Ontology Consortium (GOC) produces a wealth of resources widely used throughout the scientific community. In this chapter, we discuss the different ways in which researchers can access the resources of the GOC. We here share details about th...
Methods in molecular biology (Clifton, N.J.)
Jan 1, 2017
Two avenues to understanding gene function are complementary and often overlapping: experimental work and computational prediction. While experimental annotation generally produces high-quality annotations, it is low throughput. Conversely, computati...
Methods in molecular biology (Clifton, N.J.)
Jan 1, 2017
Collaborations between the scientific community and members of the Gene Ontology (GO) Consortium have led to an increase in the number and specificity of GO terms, as well as increasing the number of GO annotations. A variety of approaches have been ...
Methods in molecular biology (Clifton, N.J.)
Jan 1, 2017
In this chapter, we explain how text mining can support the curation of molecular biology databases dealing with protein functions. We also show how curated data can play a disruptive role in the developments of text mining methods. We review a decad...
Methods in molecular biology (Clifton, N.J.)
Jan 1, 2017
The Gene Ontology (GO) project is the largest resource for cataloguing gene function. The combination of solid conceptual underpinnings and a practical set of features have made the GO a widely adopted resource in the research community and an essent...
Methods in molecular biology (Clifton, N.J.)
Jan 1, 2017
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. A GO annotation is an...