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. 2021 Nov 9;12:6454. doi: 10.1038/s41467-021-26792-w

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© The Author(s) 2021

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

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Fig. 4 — PathScore is a random-walk based measure identifying the importance of genes in a given network. The PathScore is calculated per label for all genes and prioritizes genes not known to belong to that pathway (gray) having equivalent or higher PathScores than known genes (red). Shown for the pathway type DNA repair (A). The PathScore is higher for genes belonging to a specific pathway and generalizes genes in the pathway found only in the test set. Shown for DNA repair (B, 240 known genes). Similar performance metrics appear in Supplementary Figs. 14-15 for the rest of the pathway types considered. The boxplot extends from the lower to upper quartile values of the data, with an orange line at the median. Whiskers denote 1.5 times the interquartile range. The top five less studied genes (having no function in UniProt in addition to low number of Pubmed mentions or appearing in NextProt uncharacterized genes set) are picked out for each pathway type and presented with their descending PathScore rank for the pathway types from Reactome and GO (C). Genes are annotated by whether they appear in the uncharacterized gene set in NextProt (by a dot to denote appearance in the list), number of Pubmed mentions (“# Pubmed”) and number of associated GO terms (“# GO”). GO—gene ontology. Source data are provided as a Source Data file.