{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,26]],"date-time":"2026-02-26T20:34:24Z","timestamp":1772138064537,"version":"3.50.1"},"reference-count":13,"publisher":"Oxford University Press (OUP)","issue":"3","funder":[{"DOI":"10.13039\/100000002","name":"NIH","doi-asserted-by":"publisher","award":["GM102756"],"award-info":[{"award-number":["GM102756"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2024,3,4]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Motivation<\/jats:title>\n                    <jats:p>Spatial transcriptomics (ST) experiments provide spatially localized measurements of genome-wide gene expression allowing for an unprecedented opportunity to investigate cellular heterogeneity and organization within a tissue. Statistical and computational frameworks exist that implement robust methods for pre-processing and analyzing data in ST experiments. However, the lack of an interactive suite of tools for visualizing ST data and results currently limits the full potential of ST experiments.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Results<\/jats:title>\n                    <jats:p>To fill the gap, we developed SpatialView, an open-source web browser-based interactive application for visualizing data and results from multiple 10\u00d7 Genomics Visium ST experiments. We anticipate SpatialView will be useful to a broad array of clinical and basic science investigators utilizing ST to study disease.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availability and implementation<\/jats:title>\n                    <jats:p>SpatialView is available at https:\/\/github.com\/kendziorski-lab\/SpatialView (and https:\/\/doi.org\/10.5281\/zenodo.10223907); a demo application is available at https:\/\/www.biostat.wisc.edu\/\u02dckendzior\/spatialviewdemo\/<\/jats:p>\n                  <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btae117","type":"journal-article","created":{"date-parts":[[2024,3,4]],"date-time":"2024-03-04T17:37:27Z","timestamp":1709573847000},"source":"Crossref","is-referenced-by-count":4,"title":["SpatialView: an interactive web application for visualization of multiple samples in spatial transcriptomics experiments"],"prefix":"10.1093","volume":"40","author":[{"ORCID":"https:\/\/orcid.org\/0009-0008-0864-6371","authenticated-orcid":false,"given":"Chitrasen","family":"Mohanty","sequence":"first","affiliation":[{"name":"Department of Biostatistics and Medical Informatics, University of Wisconsin-Madison , Madison, WI 53726,","place":["United States"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Aman","family":"Prasad","sequence":"additional","affiliation":[{"name":"Department of Dermatology, University of Pennsylvania , Philadelphia, PA 19104,","place":["United States"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Lingxin","family":"Cheng","sequence":"additional","affiliation":[{"name":"Department of Biostatistics and Medical Informatics, University of Wisconsin-Madison , Madison, WI 53726,","place":["United States"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Lisa M","family":"Arkin","sequence":"additional","affiliation":[{"name":"Department of Dermatology, University of Wisconsin-Madison , Madison, WI 53715,","place":["United States"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Bridget E","family":"Shields","sequence":"additional","affiliation":[{"name":"Department of Dermatology, University of Wisconsin-Madison , Madison, WI 53715,","place":["United States"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Beth","family":"Drolet","sequence":"additional","affiliation":[{"name":"Department of Dermatology, University of Wisconsin-Madison , Madison, WI 53715,","place":["United States"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Christina","family":"Kendziorski","sequence":"additional","affiliation":[{"name":"Department of Biostatistics and Medical Informatics, University of Wisconsin-Madison , Madison, WI 53726,","place":["United States"]}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2024,3,5]]},"reference":[{"key":"2025040718511645300_btae117-B1","doi-asserted-by":"crossref","first-page":"1192","DOI":"10.1038\/s41588-022-01141-9","article-title":"Cancer cell states recur across tumor types and form specific interactions with the tumor microenvironment","volume":"54","author":"Barkley","year":"2022","journal-title":"Nat Genet"},{"key":"2025040718511645300_btae117-B2","doi-asserted-by":"crossref","first-page":"482","DOI":"10.1186\/s12864-020-06832-3","article-title":"Seamless integration of image and molecular analysis for spatial transcriptomics workflows","volume":"21","author":"Bergenstr\u00e5hle","year":"2020","journal-title":"BMC Genomics"},{"key":"2025040718511645300_btae117-B3","doi-asserted-by":"crossref","first-page":"100369","DOI":"10.1016\/j.crmeth.2022.100369","article-title":"SPATIALCORR identifies gene sets with spatially varying 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