Viewing publicly available results

Click here for a list of ortholog datasets based on the QfO reference proteomes.
Please note that for this service we currently use the QfO dataset from 2011_04.

Testing your own method

Provide us your own ortholog inference data. After uploading your predictions, you will be able to compare the quality of your predictions against other orthology inference efforts using several tests.

Protein Reference Dataset

Orthology inference is most often based on molecular protein sequences. For a comparison of different orthology prediction methods, a common set of sequences must be established. Therefore, only identical proteins are mapped to each other.

To make comparisons of method easier, the orthology research community has agreed in 2009 to established a common QfO reference proteome dataset. Currently we are using the reference proteomes from 2011, 2017 and 2018. We encourage to use always the newest dataset.

Dataset sources
The QfO Reference Proteomes version 2018-04 is the recommended current set of benchmarking. The dataset is available here: Benchmarking the older 2011-04 and 2017-04 dataset is still possible, but will be deprecated soon. The dataset is available here:
If you use the orthology benchmarking service in your work, please consider citing:
Altenhoff A et al., Standardized benchmarking in the quest for orthologs. Nature Methods, 2016, 13, 425-430 (doi: 10.1038/nmeth.3830)