{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,20]],"date-time":"2026-10-20T13:42:11Z","timestamp":1792503731572,"version":"4.5.0"},"reference-count":33,"publisher":"Oxford University Press (OUP)","issue":"10","license":[{"start":{"date-parts":[[2026,10,7]],"date-time":"2026-10-07T00:00:00Z","timestamp":1791331200000},"content-version":"vor","delay-in-days":6,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100012166","name":"National Key R&D Program of China","doi-asserted-by":"publisher","award":["2020YFA0712400"],"award-info":[{"award-number":["2020YFA0712400"]}],"id":[{"id":"10.13039\/501100012166","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100012166","name":"National Key R&D Program of China","doi-asserted-by":"publisher","award":["2022YFA1004800"],"award-info":[{"award-number":["2022YFA1004800"]}],"id":[{"id":"10.13039\/501100012166","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["12671619"],"award-info":[{"award-number":["12671619"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["62202269"],"award-info":[{"award-number":["62202269"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["62272270"],"award-info":[{"award-number":["62272270"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Shandong Provincial Natural Science Foundation for Distinguished Young Scholars","award":["ZR2023JQ002"],"award-info":[{"award-number":["ZR2023JQ002"]}]},{"name":"Science Foundation Program of the Shandong Province","award":["2023HWYQ-012"],"award-info":[{"award-number":["2023HWYQ-012"]}]},{"name":"Program of Qilu Young Scholars of Shandong University"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2026,10,2]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Motivation<\/jats:title>\n                    <jats:p>High-throughput transcriptomic technologies generate large-scale gene expression datasets for functional module discovery. However, technical and biological noise can obscure coherent expression patterns and compromise module detection. Noise-tolerant methods are therefore needed to recover meaningful biclusters.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Results<\/jats:title>\n                    <jats:p>We developed NoiBic, a noise-tolerant biclustering algorithm for high-throughput transcriptomic data. NoiBic integrates a longest approximate common subsequence-based seed identification strategy with noise-aware column expansion to improve bicluster detection under noisy conditions. Across simulated datasets with controlled settings for bicluster coherency, matrix size, bicluster number, noise level, and overlap level, NoiBic accurately recovered planted biclusters, particularly under noisy and overlapping conditions. Evaluation on bulk and single-cell RNA-seq datasets demonstrated its ability to identify biologically meaningful gene modules and cell type-associated biclusters.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availability<\/jats:title>\n                    <jats:p>NoiBic is implemented in C++17 and available at https:\/\/github.com\/lcyi0208\/NoiBic. The software version used in this study has been permanently archived on Zenodo at https:\/\/doi.org\/10.5281\/zenodo.22732377. Benchmark datasets are available at https:\/\/doi.org\/10.5281\/zenodo.21919392.<\/jats:p>\n                  <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btag743","type":"journal-article","created":{"date-parts":[[2026,10,7]],"date-time":"2026-10-07T11:55:07Z","timestamp":1791374107000},"source":"Crossref","is-referenced-by-count":0,"title":["NoiBic: a noise-tolerant biclustering algorithm for high-throughput gene expression data analysis"],"prefix":"10.1093","volume":"42","author":[{"given":"Chaoyi","family":"Long","sequence":"first","affiliation":[{"name":"Research Center for Mathematics and Interdisciplinary Sciences (Ministry of Education Frontiers Science Center for Nonlinear Expectations), Shandong University , Qingdao,","place":["China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jingxian","family":"Li","sequence":"additional","affiliation":[{"name":"School of Mathematics, Shandong University , Jinan,","place":["China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5734-1135","authenticated-orcid":false,"given":"Bingqiang","family":"Liu","sequence":"additional","affiliation":[{"name":"School of Mathematics, Shandong University , Jinan,","place":["China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-2802-6347","authenticated-orcid":false,"given":"Duanchen","family":"Sun","sequence":"additional","affiliation":[{"name":"School of Mathematics, Shandong University , Jinan,","place":["China"]},{"name":"Shandong Key Laboratory of Cancer Digital Medicine , Jinan,","place":["China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1581-5897","authenticated-orcid":false,"given":"Guojun","family":"Li","sequence":"additional","affiliation":[{"name":"Research Center for Mathematics and Interdisciplinary Sciences (Ministry of Education Frontiers 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