{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,19]],"date-time":"2026-08-19T17:55:01Z","timestamp":1787162101053,"version":"build-2736575974"},"reference-count":50,"publisher":"Oxford University Press (OUP)","issue":"4","license":[{"start":{"date-parts":[[2026,7,14]],"date-time":"2026-07-14T00:00:00Z","timestamp":1783987200000},"content-version":"vor","delay-in-days":13,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["62572398"],"award-info":[{"award-number":["62572398"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Fundamental and Interdisciplinary Disciplines Breakthrough Plan of the Ministry of Education of China","award":["JYB2025XDXM202"],"award-info":[{"award-number":["JYB2025XDXM202"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2026,7,3]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>Advanced spatially resolved transcriptomic (SRT) technologies preserve the spatial context of gene expression within tissues, enabling the study of context-dependent transcriptional regulation. Here, we propose a variational inference-assisted sparse Gaussian-process (VISGP) framework for identifying spatially variable genes (SVGs) and inferring spatially dependent cellular interactions from SRT data. VISGP combines sparse Gaussian-process approximations with variational inference via inducing variables to reduce computational and memory costs while enabling gene-specific adaptation of spatial covariance structures. Across simulated data and four real SRT datasets, VISGP detected more SVGs than existing methods and identified 85 spatially constrained ligand\u2013receptor pairs that were missed by alternative approaches. Together, VISGP provides a scalable and statistically grounded strategy for decoding spatial gene regulation and cell\u2013cell communication, yielding biological insights into cellular heterogeneity and cancer pathology.<\/jats:p>","DOI":"10.1093\/bib\/bbag371","type":"journal-article","created":{"date-parts":[[2026,7,14]],"date-time":"2026-07-14T18:34:03Z","timestamp":1784054043000},"source":"Crossref","is-referenced-by-count":1,"title":["Variational sparse Gaussian-process method for detecting spatially variable genes and cellular interactions in spatial transcriptomics"],"prefix":"10.1093","volume":"27","author":[{"given":"Zhicong","family":"Wang","sequence":"first","affiliation":[{"name":"School of Computer Science, Northwestern Polytechnical University , 1 Dongxiang Rd., Chang'an Dist., Xi'an, Shaanxi, 710129,","place":["China"]},{"name":"Department of Radiology, The First Affiliated Hospital of Xiamen University, School of Medicine, Xiamen University , 55 Zhenhai Rd., Xiamen, 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Polytechnical University , 1 Dongxiang Rd., Chang'an Dist., Xi'an, Shaanxi, 710129,","place":["China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yongtian","family":"Wang","sequence":"additional","affiliation":[{"name":"School of Computer Science, Northwestern Polytechnical University , 1 Dongxiang Rd., Chang'an Dist., Xi'an, Shaanxi, 710129,","place":["China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jing","family":"Chen","sequence":"additional","affiliation":[{"name":"School of Computer Science and Engineering, Xi\u2019an University of Technology , 5 Jinhua South Road, Xi\u2019an 710048,","place":["China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Xuequn","family":"Shang","sequence":"additional","affiliation":[{"name":"School of Computer Science, Northwestern Polytechnical University , 1 Dongxiang Rd., Chang'an Dist., Xi'an, Shaanxi, 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