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There are few recurrence risk signatures for CRC patients. Single-cell RNA-sequencing (scRNA-seq) provides a high-resolution platform for prognostic signature detection. However, scRNA-seq is not practical in large cohorts due to its high cost and most single-cell experiments lack clinical phenotype information. Few studies have been reported to use external bulk transcriptome with survival time to guide the detection of key cell subtypes in scRNA-seq data. We proposed scRankXMBD, a computational framework to prioritize prognostic-associated cell subpopulations based on within-cell relative expression orderings of gene pairs from single-cell transcriptomes. scRankXMBD achieves higher precision and concordance compared with five existing methods. Moreover, we developed single-cell gene pair signatures to predict recurrence risk for patients individually. Our work facilitates the application of the rank-based method in scRNA-seq data for prognostic biomarker discovery and precision oncology. scRankXMBD is available at https:\/\/github.com\/xmuyulab\/scRank-XMBD. 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China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zheyang","family":"Zhang","sequence":"additional","affiliation":[{"name":"State Key Laboratory of Cellular Stress Biology , School of Life Sciences, Faculty of Medicine and Life Sciences, , Xiamen, Fujian 361102 , China"},{"name":"Xiamen University , School of Life Sciences, Faculty of Medicine and Life Sciences, , Xiamen, Fujian 361102 , China"},{"name":"National Institute for Data Science in Health and Medicine, Xiamen University , Xiamen, Fujian 361102 , China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jiajing","family":"Xie","sequence":"additional","affiliation":[{"name":"National Institute for Data Science in Health and Medicine, Xiamen University , Xiamen, Fujian 361102 , China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jingyi","family":"Tian","sequence":"additional","affiliation":[{"name":"State Key Laboratory of Cellular Stress Biology , School of Life Sciences, 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Fujian 361102 , China"},{"name":"National Institute for Data Science in Health and Medicine, Xiamen University , Xiamen, Fujian 361102 , China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jialiang","family":"Huang","sequence":"additional","affiliation":[{"name":"State Key Laboratory of Cellular Stress Biology , School of Life Sciences, Faculty of Medicine and Life Sciences, , Xiamen, Fujian 361102 , China"},{"name":"Xiamen University , School of Life Sciences, Faculty of Medicine and Life Sciences, , Xiamen, Fujian 361102 , China"},{"name":"National Institute for Data Science in Health and Medicine, Xiamen University , Xiamen, Fujian 361102 , China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Rongshan","family":"Yu","sequence":"additional","affiliation":[{"name":"National Institute for Data Science in Health and Medicine, Xiamen University , Xiamen, Fujian 361102 , China"},{"name":"School of Informatics, Xiamen University , Xiamen 316000 , China"},{"name":"Aginome Scientific , Xiamen, Fujian 316005 , China"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2023,3,22]]},"reference":[{"key":"2023052021593031700_ref1","doi-asserted-by":"crossref","first-page":"7","DOI":"10.3322\/caac.21708","article-title":"Cancer statistics","volume":"72","author":"Siegel","year":"2022","journal-title":"CA Cancer J Clin"},{"key":"2023052021593031700_ref2","doi-asserted-by":"crossref","first-page":"145","DOI":"10.3322\/caac.21601","article-title":"Colorectal cancer statistics","volume":"70","author":"Siegel","year":"2020","journal-title":"CA Cancer J Clin"},{"key":"2023052021593031700_ref3","doi-asserted-by":"crossref","first-page":"11","DOI":"10.1038\/s41571-019-0241-1","article-title":"Biomarker-guided therapy for colorectal cancer: strength in complexity","volume":"17","author":"Sveen","year":"2020","journal-title":"Nat Rev Clin 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