Naslov
Visualizing GO Annotations

Autori
Supek, Fran ; Škunca, Nives

Vrsta, podvrsta i kategorija rada
Poglavlja u knjigama, pregledni

Knjiga
The Gene Ontology Handbook

Urednik/ci
Dessimoz, Christophe ; Škunca, Nives

Izdavač
Humana Press

Grad
New York (NY)

Godina
2016

Raspon stranica
207-220

ISBN
978-1-4939-3741-7

Ključne riječi
Gene Ontology, Visualization, Interpretation, Redundancy, Enrichment, Tools

Sažetak
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 function and that can be used to summarize the results of the genome-scale experiments. However, making sense of such GO enrichment analyses may be challenging. For instance, overrepresented GO functions in a set of differentially expressed genes are typically output as a flat list, a format not adequate to capture the complexities of the hierarchical structure of the GO annotation labels. In this chapter, we survey various methods to visualize large, difficult-to- interpret lists of GO terms. We catalog their availability—Web-based or standalone, the main principles they employ in summarizing large lists of GO terms, and the visualization styles they support. These brief commentaries on each software are intended as a helpful inventory, rather than comprehensive descriptions of the underlying algorithms. Instead, we show examples of their use and suggest that the choice of an appropriate visualization tool may be crucial to the utility of GO in biological discovery.

Izvorni jezik
Engleski

Znanstvena područja
Biologija

POVEZANOST RADA