{"id":85579,"date":"2026-07-18T09:53:44","date_gmt":"2026-07-18T00:53:44","guid":{"rendered":"https:\/\/www.waseda.jp\/inst\/research\/?p=85579"},"modified":"2026-08-18T09:53:58","modified_gmt":"2026-08-18T00:53:58","slug":"the-lomb-scargle-periodogram-based-differentially-expressed-gene-detection-along-pseudotime%ef%bc%88published-in-nucleic-acids-research-july-2026%ef%bc%89","status":"publish","type":"post","link":"https:\/\/www.waseda.jp\/inst\/research\/news\/85579","title":{"rendered":"The Lomb\u2013Scargle periodogram-based differentially expressed gene detection along pseudotime\uff08Published in Nucleic Acids Research, July, 2026\uff09"},"content":{"rendered":"<table class=\"table table-bordered table-colored-tbhd\" style=\"height: 636px; width: 100%; border-collapse: collapse; border-style: solid;\" border=\"1\">\n<tbody>\n<tr style=\"height: 78px;\">\n<td style=\"width: 18.9673%; height: 78px;\">Journal Title<br \/>\n\/\u63b2\u8f09\u30b8\u30e3\u30fc\u30ca\u30eb\u540d<\/td>\n<td style=\"width: 80.934%; height: 78px;\">Nucleic Acids Research<\/td>\n<\/tr>\n<tr style=\"height: 65px;\">\n<td style=\"width: 18.9673%; height: 80px;\">Publication Year and Month<br \/>\n\/\u63b2\u8f09\u5e74\u6708<\/td>\n<td style=\"width: 80.934%; height: 80px;\">July, 2026<\/td>\n<\/tr>\n<tr style=\"height: 55px;\">\n<td style=\"width: 18.9673%; height: 79px;\">Paper Title<br \/>\n\/\u8ad6\u6587\u30bf\u30a4\u30c8\u30eb<\/td>\n<td style=\"width: 80.934%; height: 79px;\">The Lomb\u2013Scargle periodogram-based differentially expressed gene detection along pseudotime<\/td>\n<\/tr>\n<tr style=\"height: 85px;\">\n<td style=\"width: 18.9673%; height: 85px;\">DOI<br \/>\n\/\u8ad6\u6587DOI<\/td>\n<td style=\"width: 80.934%; height: 85px;\"><a href=\"https:\/\/doi.org\/10.1093\/nar\/gkag682\">10.1093\/nar\/gkag682<\/a><\/td>\n<\/tr>\n<tr style=\"height: 59px;\">\n<td style=\"width: 18.9673%; height: 80px;\">\u00a0Author of Waseda University<br \/>\n\/\u672c\u5b66\u306e\u8457\u8005<\/td>\n<td style=\"width: 80.934%; height: 80px;\"><span style=\"font-family: inherit; font-size: inherit;\"><span style=\"font-family: inherit; font-size: inherit;\">IUCHI, Hitoshi(Junior Researcher(Assistant Professor), Faculty of Science and Engineering, Waseda Research Institute for Science and Engineering):Lead Author<\/span><\/span><\/td>\n<\/tr>\n<tr style=\"height: 68px;\">\n<td style=\"width: 18.9673%; height: 86px;\">Related Websites<br \/>\n\/\u95a2\u9023Web<\/td>\n<td style=\"width: 80.934%; height: 86px;\">&#8211;<\/td>\n<\/tr>\n<tr style=\"height: 138px;\">\n<td style=\"width: 18.9673%; height: 148px;\">Abstract<br \/>\n\/\u6284\u9332<\/td>\n<td style=\"width: 80.934%; height: 148px;\">\n<div id=\"abstractBox\">\n<section id=\"abs-sec-1\">Single-cell RNA sequencing has provided high-resolution snapshots of biological processes and has contributed to the understanding of cell dynamics. Trajectory inference has the potential to provide a quantitative representation of cell dynamics, and several trajectory inference algorithms have been developed. However, the downstream analysis of trajectory inference, such as the analysis of differentially expressed genes, remains challenging. Here, we present scLS, a Lomb\u2013Scargle periodogram-based framework for two differential expression tests: a dynamic expression test for pseudotime-associated variation and a shifted expression test for condition-dependent differences in pseudotime-indexed expression trajectories. Because scLS operates in the frequency domain, it does not require specification of an explicit regression model and can be applied to inferred tree-structured trajectories without explicit branch assignment. We validated this approach using simulated data and real datasets, and our results showed that scLS achieved competitive performance and complementary sensitivity to transient or complex pseudotime-associated patterns. Our approach provides a computationally efficient first-pass screening framework that can be combined with lineage-aware analyses for detailed biological interpretation.<\/section>\n<\/div>\n<\/td>\n<\/tr>\n<\/tbody>\n<\/table>\n","protected":false},"excerpt":{"rendered":"<p>Journal Title \/\u63b2\u8f09\u30b8\u30e3\u30fc\u30ca\u30eb\u540d Nucleic Acids Research Publication Year and Month \/\u63b2\u8f09\u5e74\u6708 July, 2026 Paper Title \/\u8ad6\u6587\u30bf\u30a4\u30c8\u30eb [&hellip;]<\/p>\n","protected":false},"author":3,"featured_media":0,"comment_status":"closed","ping_status":"closed","sticky":false,"template":"","format":"standard","meta":{"_acf_changed":false,"footnotes":""},"categories":[],"tags":[218,217],"class_list":["post-85579","post","type-post","status-publish","format-standard","hentry","tag-impact-en","tag-impact"],"acf":[],"_links":{"self":[{"href":"https:\/\/www.waseda.jp\/inst\/research\/wp-json\/wp\/v2\/posts\/85579","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/www.waseda.jp\/inst\/research\/wp-json\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/www.waseda.jp\/inst\/research\/wp-json\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/www.waseda.jp\/inst\/research\/wp-json\/wp\/v2\/users\/3"}],"replies":[{"embeddable":true,"href":"https:\/\/www.waseda.jp\/inst\/research\/wp-json\/wp\/v2\/comments?post=85579"}],"version-history":[{"count":1,"href":"https:\/\/www.waseda.jp\/inst\/research\/wp-json\/wp\/v2\/posts\/85579\/revisions"}],"predecessor-version":[{"id":85587,"href":"https:\/\/www.waseda.jp\/inst\/research\/wp-json\/wp\/v2\/posts\/85579\/revisions\/85587"}],"wp:attachment":[{"href":"https:\/\/www.waseda.jp\/inst\/research\/wp-json\/wp\/v2\/media?parent=85579"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/www.waseda.jp\/inst\/research\/wp-json\/wp\/v2\/categories?post=85579"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/www.waseda.jp\/inst\/research\/wp-json\/wp\/v2\/tags?post=85579"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}