PT  - JOURNAL ARTICLE
AU  - Benjamin J. Liebeskind
AU  - Claire D. McWhite
AU  - Edward M. Marcotte
TI  - Towards Consensus Gene Ages
AID  - 10.1101/042036
DP  - 2016 Jan 01
TA  - bioRxiv
PG  - 042036
4099  - http://biorxiv.org/content/early/2016/03/01/042036.short
4100  - http://biorxiv.org/content/early/2016/03/01/042036.full
AB  - Correctly estimating the age of a gene or gene family is important for a variety of fields, including molecular evolution, comparative genomics, and phylogenetics, and increasingly for systems biology and disease genetics. However, most studies use only a point estimate of a gene’s age, neglecting the substantial uncertainty involved in this estimation. Here, we characterize this uncertainty by investigating the effect of algorithm choice on gene-age inference and calculate consensus gene ages with attendant error distributions for a variety of model eukaryotes. We use thirteen orthology inference algorithms to create gene-age datasets and then characterize the error around each age-call on a per-gene and per-algorithm basis. Systematic error was found to be a large factor in estimating gene age, suggesting that simple consensus algorithms are not enough to give a reliable point estimate. We also found that different sources of error can affect downstream analyses, such as gene ontology enrichment. Our consensus gene-age datasets, with associated error terms, are made fully available at so that researchers can propagate this uncertainty through their analyses (https://github.com/marcottelab/Gene-Ages).