{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,9]],"date-time":"2026-09-09T23:07:02Z","timestamp":1788995222346,"version":"build-2803163510"},"reference-count":29,"publisher":"Oxford University Press (OUP)","issue":"5","license":[{"start":{"date-parts":[[2026,9,9]],"date-time":"2026-09-09T00:00:00Z","timestamp":1788912000000},"content-version":"vor","delay-in-days":8,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Nanyang Assistant Professorship"},{"name":"Lee Kong Chian School of Medicine and the School of Chemistry"},{"name":"Chemical Engineering and Biotechnology at Nanyang Technological University, Singapore"},{"DOI":"10.13039\/501100001459","name":"Ministry of Education, Singapore","doi-asserted-by":"publisher","award":["#025402-00001"],"award-info":[{"award-number":["#025402-00001"]}],"id":[{"id":"10.13039\/501100001459","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2026,9,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>Inferring causal relationships from time-series data is critical for uncovering the dynamics of biological regulation. However, in multi-omics studies, this task is often hampered by sparse temporal sampling and the limitations of existing methods. To address this, we developed Lagged-Correlation Based Causal Inference (lagCI), a computational framework designed to identify time-lagged associations by combining comprehensive lag-correlation profiling with a robust statistical filtering scheme. Rather than relying on simple cross-correlation, lagCI analyzes the entire correlation profile and applies a quality-scoring system to filter out spurious associations that often plague high-dimensional datasets. We first tested lagCI on wearable physiological data, where it successfully captured the well-known causal link between physical activity and heart rate, even accounting for variations in lag times between individuals. Moving to high-frequency human multi-omics, we used lagCI to build a directed network of 1624 molecules connected by over 157\u00a0000 predicted interactions. This network recapitulated established biological relationships, including cytokine\u2013hormone crosstalk, and highlighted molecular hubs that may coordinate the timing of metabolic and immune responses. Overall, lagCI provides a data-driven way to extract temporal insights from dense longitudinal omics. The tool is available as an R package with multiple interfaces to support use by both bioinformaticians and clinical researchers.<\/jats:p>","DOI":"10.1093\/bib\/bbag464","type":"journal-article","created":{"date-parts":[[2026,8,6]],"date-time":"2026-08-06T11:48:48Z","timestamp":1786016928000},"source":"Crossref","is-referenced-by-count":0,"title":["lagCI enables inference of temporal causal relationships from dense multi-omic time series"],"prefix":"10.1093","volume":"27","author":[{"given":"Yifei","family":"Ge","sequence":"first","affiliation":[{"name":"Lee Kong Chian School of Medicine, Nanyang Technological University , 59 Nanyang Drive, Singapore 636921 ,","place":["Singapore"]},{"name":"School of Chemistry, Chemical Engineering and Biotechnology, Nanyang Technological University , 62 Nanyang Drive, Singapore 637459 ,","place":["Singapore"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Shunpeng","family":"Bai","sequence":"additional","affiliation":[{"name":"Lee Kong Chian School of Medicine, Nanyang Technological University , 59 Nanyang Drive, Singapore 636921 ,","place":["Singapore"]},{"name":"College of Life Science and Technology, Huazhong Agricultural University , No. 1 Shizishan Street, Hongshan District, Wuhan, Hubei 430070 ,","place":["China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zirui","family":"Qiang","sequence":"additional","affiliation":[{"name":"Lee Kong Chian School of Medicine, Nanyang Technological University , 59 Nanyang Drive, Singapore 636921 ,","place":["Singapore"]},{"name":"College of Computer Science and Technology, Harbin Institute of Technology, HIT Campus, The University Town of Shenzhen , Xili, Nanshan District, Shenzhen, Guangdong 518055 ,","place":["China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yijiang","family":"Liu","sequence":"additional","affiliation":[{"name":"Lee Kong Chian School of Medicine, Nanyang Technological University , 59 Nanyang Drive, Singapore 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