{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,24]],"date-time":"2026-08-24T00:43:19Z","timestamp":1787532199209,"version":"build-2736575974"},"reference-count":22,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2026,7,29]],"date-time":"2026-07-29T00:00:00Z","timestamp":1785283200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.springernature.com\/gp\/researchers\/text-and-data-mining"},{"start":{"date-parts":[[2026,7,29]],"date-time":"2026-07-29T00:00:00Z","timestamp":1785283200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/www.springernature.com\/gp\/researchers\/text-and-data-mining"}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["Funct Integr Genomics"],"published-print":{"date-parts":[[2026,12]]},"DOI":"10.1007\/s10142-026-01995-w","type":"journal-article","created":{"date-parts":[[2026,7,29]],"date-time":"2026-07-29T01:29:17Z","timestamp":1785288557000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":1,"title":["A single-cell cell-of-origin audit of the lncRNA RMST: bulk expression under-represents its broad neural expression and over-attributes a liver biomarker"],"prefix":"10.1007","volume":"26","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-6390-4136","authenticated-orcid":false,"given":"Hidenori","family":"Tani","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2026,7,29]]},"reference":[{"key":"1995_CR1","doi-asserted-by":"publisher","first-page":"eaba1983","DOI":"10.1126\/sciadv.aba1983","volume":"6","author":"TS Adams","year":"2020","unstructured":"Adams TS, Schupp JC, Poli S et al (2020) Single-cell RNA-seq reveals ectopic and aberrant lung-resident cell populations in idiopathic pulmonary fibrosis. Sci Adv 6:eaba1983. https:\/\/doi.org\/10.1126\/sciadv.aba1983","journal-title":"Sci Adv"},{"key":"1995_CR2","doi-asserted-by":"publisher","unstructured":"Bot E, Davila-Velderrain J (2025) Gene specificity landscapes for comparative transcriptomic analysis across tissues, cell types, and species. bioRxiv. https:\/\/doi.org\/10.1101\/2025.06.04.657813","DOI":"10.1101\/2025.06.04.657813"},{"key":"1995_CR3","doi-asserted-by":"publisher","first-page":"1915","DOI":"10.1101\/gad.17446611","volume":"25","author":"MN Cabili","year":"2011","unstructured":"Cabili MN, Trapnell C, Goff L, Koziol M, Tazon-Vega B, Regev A, Rinn JL (2011) Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses. Genes Dev 25:1915\u20131927. https:\/\/doi.org\/10.1101\/gad.17446611","journal-title":"Genes Dev"},{"key":"1995_CR4","doi-asserted-by":"publisher","first-page":"717","DOI":"10.1016\/j.molcel.2009.01.026","volume":"33","author":"CM Clemson","year":"2009","unstructured":"Clemson CM, Hutchinson JN, Sara SA et al (2009) An architectural role for a nuclear noncoding RNA: NEAT1 RNA is essential for the structure of paraspeckles. Mol Cell 33:717\u2013726. https:\/\/doi.org\/10.1016\/j.molcel.2009.01.026","journal-title":"Mol Cell"},{"key":"1995_CR5","doi-asserted-by":"publisher","first-page":"D886","DOI":"10.1093\/nar\/gkae1142","volume":"53","author":"CZI Cell Science Program","year":"2025","unstructured":"CZI Cell Science Program (2025) CZ CELLxGENE Discover: a single-cell data platform for scalable exploration, analysis and modeling of aggregated data. Nucleic Acids Res 53:D886\u2013D900. https:\/\/doi.org\/10.1093\/nar\/gkae1142","journal-title":"Nucleic Acids Res"},{"key":"1995_CR6","doi-asserted-by":"publisher","first-page":"1323","DOI":"10.1038\/s41592-023-01943-7","volume":"20","author":"SJ Fleming","year":"2023","unstructured":"Fleming SJ, Chaffin MD, Arduini A et al (2023) Unsupervised removal of systematic background noise from droplet-based single-cell experiments using Cell Bender. Nat Methods 20:1323\u20131335. https:\/\/doi.org\/10.1038\/s41592-023-01943-7","journal-title":"Nat Methods"},{"key":"1995_CR7","doi-asserted-by":"publisher","first-page":"1318","DOI":"10.1126\/science.aaz1776","volume":"369","author":"GTEx Consortium","year":"2020","unstructured":"GTEx Consortium (2020) The GTEx Consortium atlas of genetic regulatory effects across human tissues. Science 369:1318\u20131330. https:\/\/doi.org\/10.1126\/science.aaz1776","journal-title":"Science"},{"key":"1995_CR8","doi-asserted-by":"publisher","first-page":"955","DOI":"10.1038\/nmeth.4407","volume":"14","author":"N Habib","year":"2017","unstructured":"Habib N, Avraham-Davidi I, Basu A et al (2017) Massively parallel single-nucleus RNA-seq with DroNc-seq. Nat Methods 14:955\u2013958. https:\/\/doi.org\/10.1038\/nmeth.4407","journal-title":"Nat Methods"},{"key":"1995_CR9","doi-asserted-by":"publisher","first-page":"39","DOI":"10.1186\/1471-2164-8-39","volume":"8","author":"JN Hutchinson","year":"2007","unstructured":"Hutchinson JN, Ensminger AW, Clemson CM, Lynch CR, Lawrence JB, Chess A (2007) A screen for nuclear transcripts identifies two linked noncoding RNAs associated with SC35 splicing domains. BMC Genomics 8:39. https:\/\/doi.org\/10.1186\/1471-2164-8-39","journal-title":"BMC Genomics"},{"key":"1995_CR10","doi-asserted-by":"publisher","first-page":"466","DOI":"10.1038\/s41586-020-2797-4","volume":"588","author":"M Litvi\u0148ukov\u00e1","year":"2020","unstructured":"Litvi\u0148ukov\u00e1 M, Talavera-L\u00f3pez C, Maatz H et al (2020) Cells of the adult human heart. Nature 588:466\u2013472. https:\/\/doi.org\/10.1038\/s41586-020-2797-4","journal-title":"Nature"},{"key":"1995_CR11","doi-asserted-by":"publisher","DOI":"10.1016\/j.xpro.2022.101121","volume":"3","author":"A Marquez-Galera","year":"2022","unstructured":"Marquez-Galera A, de la Prida LM, Lopez-Atalaya JP (2022) A protocol to extract cell-type-specific signatures from differentially expressed genes in bulk-tissue RNA-seq. STAR Protoc 3:101121. https:\/\/doi.org\/10.1016\/j.xpro.2022.101121","journal-title":"STAR Protoc"},{"key":"1995_CR12","doi-asserted-by":"publisher","first-page":"453","DOI":"10.1038\/nmeth.3337","volume":"12","author":"AM Newman","year":"2015","unstructured":"Newman AM, Liu CL, Green MR et al (2015) Robust enumeration of cell subsets from tissue expression profiles. Nat Methods 12:453\u2013457. https:\/\/doi.org\/10.1038\/nmeth.3337","journal-title":"Nat Methods"},{"key":"1995_CR13","doi-asserted-by":"publisher","first-page":"349","DOI":"10.1016\/j.molcel.2013.07.017","volume":"51","author":"SY Ng","year":"2013","unstructured":"Ng SY, Bogu GK, Soh BS, Stanton LW (2013) The long noncoding RNA RMST interacts with SOX2 to regulate neurogenesis. Mol Cell 51:349\u2013359. https:\/\/doi.org\/10.1016\/j.molcel.2013.07.017","journal-title":"Mol Cell"},{"key":"1995_CR14","doi-asserted-by":"publisher","first-page":"512","DOI":"10.1038\/s41586-019-1631-3","volume":"575","author":"P Ramachandran","year":"2019","unstructured":"Ramachandran P, Dobie R, Wilson-Kanamori JR et al (2019) Resolving the fibrotic niche of human liver cirrhosis at single-cell level. Nature 575:512\u2013518. https:\/\/doi.org\/10.1038\/s41586-019-1631-3","journal-title":"Nature"},{"key":"1995_CR15","doi-asserted-by":"publisher","first-page":"96","DOI":"10.1038\/s41580-020-00315-9","volume":"22","author":"L Statello","year":"2021","unstructured":"Statello L, Guo CJ, Chen LL, Huarte M (2021) Gene regulation by long non-coding RNAs and its biological functions. Nat Rev Mol Cell Biol 22:96\u2013118. https:\/\/doi.org\/10.1038\/s41580-020-00315-9","journal-title":"Nat Rev Mol Cell Biol"},{"key":"1995_CR16","doi-asserted-by":"publisher","unstructured":"Tabula Sapiens Consortium (2022) The Tabula Sapiens: a multiple-organ, single-cell transcriptomic atlas of humans. Science 376:eabl4896. https:\/\/doi.org\/10.1126\/science.abl4896","DOI":"10.1126\/science.abl4896"},{"key":"1995_CR17","doi-asserted-by":"publisher","first-page":"73","DOI":"10.1093\/jb\/mvae083","volume":"177","author":"H Tani","year":"2025","unstructured":"Tani H (2025) RMST: a long noncoding RNA involved in cancer and disease. J Biochem 177:73\u201378. https:\/\/doi.org\/10.1093\/jb\/mvae083","journal-title":"J Biochem"},{"key":"1995_CR18","doi-asserted-by":"publisher","first-page":"380","DOI":"10.1038\/s41467-018-08023-x","volume":"10","author":"X Wang","year":"2019","unstructured":"Wang X, Park J, Susztak K, Zhang NR, Li M (2019) Bulk tissue cell type deconvolution with multi-subject single-cell expression reference. Nat Commun 10:380. https:\/\/doi.org\/10.1038\/s41467-018-08023-x","journal-title":"Nat Commun"},{"key":"1995_CR19","doi-asserted-by":"publisher","first-page":"15","DOI":"10.1186\/s13059-017-1382-0","volume":"19","author":"FA Wolf","year":"2018","unstructured":"Wolf FA, Angerer P, Theis FJ (2018) SCANPY: large-scale single-cell gene expression data analysis. Genome Biol 19:15. https:\/\/doi.org\/10.1186\/s13059-017-1382-0","journal-title":"Genome Biol"},{"key":"1995_CR20","doi-asserted-by":"publisher","first-page":"650","DOI":"10.1093\/bioinformatics\/bti042","volume":"21","author":"I Yanai","year":"2005","unstructured":"Yanai I, Benjamin H, Shmoish M et al (2005) Genome-wide midrange transcription profiles reveal expression level relationships in human tissue specification. Bioinformatics 21:650\u2013659. https:\/\/doi.org\/10.1093\/bioinformatics\/bti042","journal-title":"Bioinformatics"},{"key":"1995_CR21","doi-asserted-by":"publisher","first-page":"8927","DOI":"10.3390\/ijms25168927","volume":"25","author":"S Yokoyama","year":"2024","unstructured":"Yokoyama S, Muto H, Honda T, Kurokawa Y, Ogawa H, Nakajima R, Kawashima H, Tani H (2024) Identification of two long noncoding RNAs, Kcnq1ot1 and Rmst, as biomarkers in chronic liver diseases in mice. Int J Mol Sci 25:8927. https:\/\/doi.org\/10.3390\/ijms25168927","journal-title":"Int J Mol Sci"},{"key":"1995_CR22","doi-asserted-by":"publisher","first-page":"giaa151","DOI":"10.1093\/gigascience\/giaa151","volume":"9","author":"MD Young","year":"2020","unstructured":"Young MD, Behjati S (2020) SoupX removes ambient RNA contamination from droplet-based single-cell RNA sequencing data. Gigascience 9:giaa151. https:\/\/doi.org\/10.1093\/gigascience\/giaa151","journal-title":"Gigascience"}],"container-title":["Functional & Integrative Genomics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1007\/s10142-026-01995-w.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/article\/10.1007\/s10142-026-01995-w","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1007\/s10142-026-01995-w.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,7,31]],"date-time":"2026-07-31T18:12:09Z","timestamp":1785521529000},"score":1,"resource":{"primary":{"URL":"https:\/\/link.springer.com\/10.1007\/s10142-026-01995-w"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,7,29]]},"references-count":22,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2026,12]]}},"alternative-id":["1995"],"URL":"https:\/\/doi.org\/10.1007\/s10142-026-01995-w","relation":{},"ISSN":["1438-793X","1438-7948"],"issn-type":[{"value":"1438-793X","type":"print"},{"value":"1438-7948","type":"electronic"}],"subject":[],"published":{"date-parts":[[2026,7,29]]},"assertion":[{"value":"10 June 2026","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"15 July 2026","order":2,"name":"revised","label":"Revised","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"23 July 2026","order":3,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"29 July 2026","order":4,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"Not applicable. This is a computational study that used only previously published, publicly available and de-identified data (GTEx v8 and the CZ CELLxGENE Discover Census); no new experiments involving human participants or animals were performed by the author.","order":1,"name":"Ethics","label":"Ethics approval","group":{"name":"EthicsHeading","label":"Declarations"}},{"value":"Not applicable (no new human participants or identifiable individual data).","order":2,"name":"Ethics","label":"Consent to participate\/consent for publication","group":{"name":"EthicsHeading","label":"Declarations"}},{"value":"The author has no relevant financial or non-financial interests to disclose.","order":3,"name":"Ethics","label":"Competing interests","group":{"name":"EthicsHeading","label":"Declarations"}}],"article-number":"205"}}