{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,25]],"date-time":"2026-02-25T03:46:45Z","timestamp":1771991205549,"version":"3.50.1"},"reference-count":10,"publisher":"Oxford University Press (OUP)","issue":"13","license":[{"start":{"date-parts":[[2022,5,23]],"date-time":"2022-05-23T00:00:00Z","timestamp":1653264000000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["62131004"],"award-info":[{"award-number":["62131004"]}],"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":["62102064"],"award-info":[{"award-number":["62102064"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Special Science Foundation of Quzhou","award":["2021D004"],"award-info":[{"award-number":["2021D004"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2022,6,27]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:sec><jats:title>Summary<\/jats:title><jats:p>Integrative analysis of single-cell RNA-sequencing (scRNA-seq) data with spatial data for the same species and organ would provide each cell sample with a predictive spatial location, which would facilitate biological study. However, publicly available spatial sequencing datasets for specific species and organs are rare and are often displayed in different formats. In this study, we introduce a new web-based scRNA-seq analysis tool, webSCST, that integrates well-organized spatial transcriptome sequencing datasets categorized by species and organs, provides a user-friendly interface for raw single-cell processing with popular integration methods and allows users to submit their raw scRNA-seq data once to obtain predicted spatial locations for each cell type.<\/jats:p><\/jats:sec><jats:sec><jats:title>Availability and implementation<\/jats:title><jats:p>webSCST implemented in shiny with all major browsers supported is available at http:\/\/www.webscst.com. webSCST is also freely available as an R package at https:\/\/github.com\/swsoyee\/webSCST.<\/jats:p><\/jats:sec>","DOI":"10.1093\/bioinformatics\/btac350","type":"journal-article","created":{"date-parts":[[2022,5,23]],"date-time":"2022-05-23T12:37:35Z","timestamp":1653309455000},"page":"3488-3489","source":"Crossref","is-referenced-by-count":35,"title":["webSCST: an interactive web application for single-cell RNA-sequencing data and spatial transcriptomic data integration"],"prefix":"10.1093","volume":"38","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-4934-1258","authenticated-orcid":false,"given":"Zilong","family":"Zhang","sequence":"first","affiliation":[{"name":"School of Computer Science and Technology, Hainan University , Haikou 570228, China"},{"name":"Institute of Fundamental and Frontier Sciences, University of Electronic Science and Technology of China , Chengdu 610054, China"},{"name":"Yangtze Delta Region Institute (Quzhou), University of Electronic Science and Technology of China , Quzhou 324000, China"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7055-3813","authenticated-orcid":false,"given":"Feifei","family":"Cui","sequence":"additional","affiliation":[{"name":"School of Computer Science and Technology, Hainan University , Haikou 570228, China"},{"name":"Institute of Fundamental and Frontier Sciences, University of Electronic Science and Technology of China , Chengdu 610054, China"},{"name":"Yangtze Delta Region Institute (Quzhou), University of Electronic Science and Technology of China , Quzhou 324000, China"}]},{"given":"Wei","family":"Su","sequence":"additional","affiliation":[{"name":"Yahoo Japan Corporation , Tokyo 102-8282, Japan"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3617-3416","authenticated-orcid":false,"given":"Lijun","family":"Dou","sequence":"additional","affiliation":[{"name":"Institute of Fundamental and Frontier Sciences, University of Electronic Science and Technology of China , Chengdu 610054, China"},{"name":"Yangtze Delta Region Institute (Quzhou), University of Electronic Science and Technology of China , Quzhou 324000, China"}]},{"given":"Anqi","family":"Xu","sequence":"additional","affiliation":[{"name":"The First School of Clinical Medicine, Shandong University of Traditional Chinese Medicine , Jinan 250014, China"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5343-808X","authenticated-orcid":false,"given":"Chen","family":"Cao","sequence":"additional","affiliation":[{"name":"School of Biomedical Engineering and Informatics, Nanjing Medical University , Nanjing 211166, China"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6406-1142","authenticated-orcid":false,"given":"Quan","family":"Zou","sequence":"additional","affiliation":[{"name":"Institute of Fundamental and Frontier Sciences, University of Electronic Science and Technology of China , Chengdu 610054, China"},{"name":"Yangtze Delta Region Institute (Quzhou), University of Electronic Science and Technology of China , Quzhou 324000, China"}]}],"member":"286","published-online":{"date-parts":[[2022,5,23]]},"reference":[{"key":"2023041408095734400_","doi-asserted-by":"crossref","first-page":"517","DOI":"10.1038\/s41587-021-00830-w","article-title":"Robust decomposition of cell type mixtures in spatial transcriptomics","volume":"40","author":"Cable","year":"2021","journal-title":"Nat. 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