{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,3]],"date-time":"2026-08-03T09:47:16Z","timestamp":1785750436641,"version":"3.56.0"},"reference-count":94,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2026,5,25]],"date-time":"2026-05-25T00:00:00Z","timestamp":1779667200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0"},{"start":{"date-parts":[[2026,8,3]],"date-time":"2026-08-03T00:00:00Z","timestamp":1785715200000},"content-version":"vor","delay-in-days":70,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0"}],"funder":[{"DOI":"10.13039\/100000057","name":"National Institute of General Medical Sciences","doi-asserted-by":"publisher","award":["T32GM122741"],"award-info":[{"award-number":["T32GM122741"]}],"id":[{"id":"10.13039\/100000057","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000057","name":"National Institute of General Medical Sciences","doi-asserted-by":"publisher","award":["T32GM135123"],"award-info":[{"award-number":["T32GM135123"]}],"id":[{"id":"10.13039\/100000057","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000062","name":"National Institute of Diabetes and Digestive and Kidney Diseases","doi-asserted-by":"publisher","award":["2P01DK094779"],"award-info":[{"award-number":["2P01DK094779"]}],"id":[{"id":"10.13039\/100000062","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000062","name":"National Institute of Diabetes and Digestive and Kidney Diseases","doi-asserted-by":"publisher","award":["2P01DK094779"],"award-info":[{"award-number":["2P01DK094779"]}],"id":[{"id":"10.13039\/100000062","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000062","name":"National Institute of Diabetes and Digestive and Kidney Diseases","doi-asserted-by":"publisher","award":["F31DK137574"],"award-info":[{"award-number":["F31DK137574"]}],"id":[{"id":"10.13039\/100000062","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000062","name":"National Institute of Diabetes and Digestive and Kidney Diseases","doi-asserted-by":"publisher","award":["2P01DK094779"],"award-info":[{"award-number":["2P01DK094779"]}],"id":[{"id":"10.13039\/100000062","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000062","name":"National Institute of Diabetes and Digestive and Kidney Diseases","doi-asserted-by":"publisher","award":["2P01DK094779"],"award-info":[{"award-number":["2P01DK094779"]}],"id":[{"id":"10.13039\/100000062","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000062","name":"National Institute of Diabetes and Digestive and Kidney Diseases","doi-asserted-by":"publisher","award":["2P01DK094779"],"award-info":[{"award-number":["2P01DK094779"]}],"id":[{"id":"10.13039\/100000062","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000062","name":"National Institute of Diabetes and Digestive and Kidney Diseases","doi-asserted-by":"publisher","award":["2P01DK094779"],"award-info":[{"award-number":["2P01DK094779"]}],"id":[{"id":"10.13039\/100000062","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000062","name":"National Institute of Diabetes and Digestive and Kidney Diseases","doi-asserted-by":"publisher","award":["2P01DK094779"],"award-info":[{"award-number":["2P01DK094779"]}],"id":[{"id":"10.13039\/100000062","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000062","name":"National Institute of Diabetes and Digestive and Kidney Diseases","doi-asserted-by":"publisher","award":["2P01DK094779"],"award-info":[{"award-number":["2P01DK094779"]}],"id":[{"id":"10.13039\/100000062","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000062","name":"National Institute of Diabetes and Digestive and Kidney Diseases","doi-asserted-by":"publisher","award":["2P01DK094779"],"award-info":[{"award-number":["2P01DK094779"]}],"id":[{"id":"10.13039\/100000062","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000062","name":"National Institute of Diabetes and Digestive and Kidney Diseases","doi-asserted-by":"publisher","award":["1R01DK136262"],"award-info":[{"award-number":["1R01DK136262"]}],"id":[{"id":"10.13039\/100000062","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000062","name":"National Institute of Diabetes and Digestive and Kidney Diseases","doi-asserted-by":"publisher","award":["1R01DK136262"],"award-info":[{"award-number":["1R01DK136262"]}],"id":[{"id":"10.13039\/100000062","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100007028","name":"Leona M. and Harry B. Helmsley Charitable Trust","doi-asserted-by":"publisher","award":["2105-04679"],"award-info":[{"award-number":["2105-04679"]}],"id":[{"id":"10.13039\/100007028","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100007028","name":"Leona M. and Harry B. Helmsley Charitable Trust","doi-asserted-by":"publisher","award":["2105-04679"],"award-info":[{"award-number":["2105-04679"]}],"id":[{"id":"10.13039\/100007028","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100007028","name":"Leona M. and Harry B. Helmsley Charitable Trust","doi-asserted-by":"publisher","award":["2105-04679"],"award-info":[{"award-number":["2105-04679"]}],"id":[{"id":"10.13039\/100007028","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100007028","name":"Leona M. and Harry B. Helmsley Charitable Trust","doi-asserted-by":"publisher","award":["2105-04679"],"award-info":[{"award-number":["2105-04679"]}],"id":[{"id":"10.13039\/100007028","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100007028","name":"Leona M. and Harry B. Helmsley Charitable Trust","doi-asserted-by":"publisher","award":["2105-04679"],"award-info":[{"award-number":["2105-04679"]}],"id":[{"id":"10.13039\/100007028","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100007028","name":"Leona M. and Harry B. Helmsley Charitable Trust","doi-asserted-by":"publisher","award":["2105-04679"],"award-info":[{"award-number":["2105-04679"]}],"id":[{"id":"10.13039\/100007028","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100007028","name":"Leona M. and Harry B. Helmsley Charitable Trust","doi-asserted-by":"publisher","award":["2105-04679"],"award-info":[{"award-number":["2105-04679"]}],"id":[{"id":"10.13039\/100007028","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100007028","name":"Leona M. and Harry B. Helmsley Charitable Trust","doi-asserted-by":"publisher","award":["2105-04679"],"award-info":[{"award-number":["2105-04679"]}],"id":[{"id":"10.13039\/100007028","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100007028","name":"Leona M. and Harry B. Helmsley Charitable Trust","doi-asserted-by":"publisher","award":["2105-04679"],"award-info":[{"award-number":["2105-04679"]}],"id":[{"id":"10.13039\/100007028","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100007028","name":"Leona M. and Harry B. Helmsley Charitable Trust","doi-asserted-by":"publisher","award":["2105-04679"],"award-info":[{"award-number":["2105-04679"]}],"id":[{"id":"10.13039\/100007028","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100007028","name":"Leona M. and Harry B. Helmsley Charitable Trust","doi-asserted-by":"publisher","award":["2105-04679"],"award-info":[{"award-number":["2105-04679"]}],"id":[{"id":"10.13039\/100007028","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100007028","name":"Leona M. and Harry B. Helmsley Charitable Trust","doi-asserted-by":"publisher","award":["2105-04679"],"award-info":[{"award-number":["2105-04679"]}],"id":[{"id":"10.13039\/100007028","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["Sci Rep"],"DOI":"10.1038\/s41598-026-54788-3","type":"journal-article","created":{"date-parts":[[2026,5,25]],"date-time":"2026-05-25T03:53:50Z","timestamp":1779681230000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":0,"title":["Reference-guided genome assembly of long non-coding rna transcripts reveals target genes associated with Crohn\u2019s disease"],"prefix":"10.1038","volume":"16","author":[{"given":"Meaghan M.","family":"Kennedy Ng","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sophie","family":"Silverstein","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Nina C.","family":"Nishiyama","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Caroline","family":"Beasley","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Grace","family":"Lian","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Benjamin","family":"Huan","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Gwen","family":"Lau","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"David","family":"Weaver","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ayesh","family":"Awad","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Matthew R.","family":"Schaner","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Shehzad Z.","family":"Sheikh","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Terrence S.","family":"Furey","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2026,5,25]]},"reference":[{"key":"54788_CR1","doi-asserted-by":"publisher","unstructured":"Sartor, R. B. Mechanisms of disease: pathogenesis of Crohn\u2019s disease and ulcerative colitis, Nat. Clin. Pract. Gastroenterol. Hepatol., vol. 3, no. 7, Art. no. 7, Jul. (2006). https:\/\/doi.org\/10.1038\/ncpgasthep0528","DOI":"10.1038\/ncpgasthep0528"},{"key":"54788_CR2","doi-asserted-by":"publisher","unstructured":"Roda, G. et al. Apr., Crohn\u2019s disease, Nat. Rev. Dis. Primer, vol. 6, no. 1, Art. no. 1, (2020). https:\/\/doi.org\/10.1038\/s41572-020-0156-2","DOI":"10.1038\/s41572-020-0156-2"},{"key":"54788_CR3","doi-asserted-by":"publisher","unstructured":"Furey, T. S., Sethupathy, P. & Sheikh, S. Z. Redefining the IBDs using genome-scale molecular phenotyping, Nat. Rev. Gastroenterol. Hepatol., vol. 16, no. 5, Art. no. 5, May (2019). https:\/\/doi.org\/10.1038\/s41575-019-0118-x","DOI":"10.1038\/s41575-019-0118-x"},{"key":"54788_CR4","doi-asserted-by":"publisher","unstructured":"Amaral, P. et al. Oct., The status of the human gene catalogue, Nature, vol. 622, no. 7981, Art. no. 7981, (2023). https:\/\/doi.org\/10.1038\/s41586-023-06490-x","DOI":"10.1038\/s41586-023-06490-x"},{"key":"54788_CR5","doi-asserted-by":"publisher","unstructured":"Mattick, J. S. et al. Jun., Long non-coding RNAs: definitions, functions, challenges and recommendations, Nat. Rev. Mol. Cell Biol., vol. 24, no. 6, Art. no. 6, (2023). https:\/\/doi.org\/10.1038\/s41580-022-00566-8","DOI":"10.1038\/s41580-022-00566-8"},{"key":"54788_CR6","doi-asserted-by":"publisher","unstructured":"Statello, L., Guo, C. J., Chen, L. L. & Huarte, M. Gene regulation by long non-coding RNAs and its biological functions, Nat. Rev. Mol. Cell Biol., vol. 22, no. 2, Art. no. 2, Feb. (2021). https:\/\/doi.org\/10.1038\/s41580-020-00315-9","DOI":"10.1038\/s41580-020-00315-9"},{"key":"54788_CR7","doi-asserted-by":"publisher","unstructured":"Braun, T. et al. Jul., Mucosal transcriptomics highlight lncRNAs implicated in ulcerative colitis, Crohn\u2019s disease, and celiac disease, JCI Insight, vol. 8, no. 14, Art. no. 14, (2023). https:\/\/doi.org\/10.1172\/jci.insight.170181","DOI":"10.1172\/jci.insight.170181"},{"key":"54788_CR8","doi-asserted-by":"publisher","unstructured":"Pelia, R. et al. Jul., Profiling non-coding RNA levels with clinical classifiers in pediatric Crohn\u2019s disease, BMC Med. Genomics, vol. 14, no. 1, Art. no. 1, (2021). https:\/\/doi.org\/10.1186\/s12920-021-01041-7","DOI":"10.1186\/s12920-021-01041-7"},{"key":"54788_CR9","doi-asserted-by":"publisher","unstructured":"Haberman, Y. et al. Long ncRNA Landscape in the Ileum of Treatment-Naive Early-Onset Crohn Disease. Inflamm. Bowel Dis. 24, no., https:\/\/doi.org\/10.1093\/ibd\/izx013 (Jan. 2018). 2, Art. 2.","DOI":"10.1093\/ibd\/izx013"},{"key":"54788_CR10","doi-asserted-by":"publisher","unstructured":"Johnson, J. L. et al. Feb., Gene coexpression networks reveal a broad role for lncRNAs in inflammatory bowel disease, JCI Insight, vol. 9, no. 3, Art. no. 3, (2024). https:\/\/doi.org\/10.1172\/jci.insight.168988","DOI":"10.1172\/jci.insight.168988"},{"key":"54788_CR11","doi-asserted-by":"publisher","unstructured":"Mirza, A. H. et al. May., Transcriptomic landscape of lncRNAs in inflammatory bowel disease, Genome Med., vol. 7, no. 1, Art. no. 1, (2015). https:\/\/doi.org\/10.1186\/s13073-015-0162-2","DOI":"10.1186\/s13073-015-0162-2"},{"key":"54788_CR12","doi-asserted-by":"publisher","unstructured":"Vierbuchen, T. et al. Jan., The lncRNA LUCAT1 is elevated in inflammatory disease and restrains inflammation by regulating the splicing and stability of NR4A2, Proc. Natl. Acad. Sci., vol. 120, no. 1, Art. no. 1, (2023). https:\/\/doi.org\/10.1073\/pnas.2213715120","DOI":"10.1073\/pnas.2213715120"},{"key":"54788_CR13","doi-asserted-by":"publisher","unstructured":"Padua, D. et al. Sep., A long noncoding RNA signature for ulcerative colitis identifies IFNG-AS1 as an enhancer of inflammation, Am. J. Physiol. - Gastrointest. Liver Physiol., vol. 311, no. 3, Art. no. 3, (2016). https:\/\/doi.org\/10.1152\/ajpgi.00212.2016","DOI":"10.1152\/ajpgi.00212.2016"},{"key":"54788_CR14","doi-asserted-by":"publisher","unstructured":"Gomez, J. A. et al. Feb., The NeST Long ncRNA Controls Microbial Susceptibility and Epigenetic Activation of the Interferon-\u03b3 Locus, Cell, vol. 152, no. 4, Art. no. 4, (2013). https:\/\/doi.org\/10.1016\/j.cell.2013.01.015","DOI":"10.1016\/j.cell.2013.01.015"},{"key":"54788_CR15","doi-asserted-by":"publisher","unstructured":"Ak\u0131nc\u0131lar, S. C. et al. Oct., NAIL: an evolutionarily conserved lncRNA essential for licensing coordinated activation of p38 and NF\u03baB in colitis, Gut, vol. 70, no. 10, Art. no. 10, (2021). https:\/\/doi.org\/10.1136\/gutjnl-2020-322980","DOI":"10.1136\/gutjnl-2020-322980"},{"key":"54788_CR16","doi-asserted-by":"publisher","unstructured":"Ma, H. et al. May., A lncRNA from an inflammatory bowel disease risk locus maintains intestinal host-commensal homeostasis, Cell Res., vol. 33, no. 5, Art. no. 5, (2023). https:\/\/doi.org\/10.1038\/s41422-023-00790-7","DOI":"10.1038\/s41422-023-00790-7"},{"key":"54788_CR17","doi-asserted-by":"publisher","unstructured":"Shmuel-Galia, L. et al. The lncRNA HOXA11os regulates mitochondrial function in myeloid cells to maintain intestinal homeostasis. Cell. Metab. 35,. https:\/\/doi.org\/10.1016\/j.cmet.2023.06.019 (2023). 8, Art. 8, Aug.","DOI":"10.1016\/j.cmet.2023.06.019"},{"key":"54788_CR18","doi-asserted-by":"publisher","unstructured":"Ilott, N. E. et al. Jun., Long non-coding RNAs and enhancer RNAs regulate the lipopolysaccharide-induced inflammatory response in human monocytes, Nat. Commun., vol. 5, no. 1, Art. no. 1, (2014). https:\/\/doi.org\/10.1038\/ncomms4979","DOI":"10.1038\/ncomms4979"},{"key":"54788_CR19","doi-asserted-by":"publisher","unstructured":"Gil, N. & Ulitsky, I. Production of Spliced Long Noncoding RNAs Specifies Regions with Increased Enhancer Activity. Cell. Syst. 7 (5), 537\u2013547. https:\/\/doi.org\/10.1016\/j.cels.2018.10.009 (Nov. 2018). .e3.","DOI":"10.1016\/j.cels.2018.10.009"},{"key":"54788_CR20","doi-asserted-by":"publisher","unstructured":"Lam, M. T. Y., Li, W., Rosenfeld, M. G. & Glass, C. K. Enhancer RNAs and regulated transcriptional programs. Trends Biochem. Sci. 39 (4), 170\u2013182. https:\/\/doi.org\/10.1016\/j.tibs.2014.02.007 (Apr. 2014).","DOI":"10.1016\/j.tibs.2014.02.007"},{"key":"54788_CR21","doi-asserted-by":"publisher","unstructured":"Tan, J. Y., Biasini, A., Young, R. S. & Marques, A. C. Splicing of enhancer-associated lincRNAs contributes to enhancer activity, Life Sci. Alliance, vol. 3, no. 4, p. e202000663, Apr. (2020). https:\/\/doi.org\/10.26508\/lsa.202000663","DOI":"10.26508\/lsa.202000663"},{"key":"54788_CR22","doi-asserted-by":"publisher","unstructured":"Tan, J. Y. & Marques, A. C. The activity of human enhancers is modulated by the splicing of their associated lncRNAs. PLOS Comput. Biol. 18 (1), e1009722. https:\/\/doi.org\/10.1371\/journal.pcbi.1009722 (Jan. 2022).","DOI":"10.1371\/journal.pcbi.1009722"},{"key":"54788_CR23","doi-asserted-by":"publisher","unstructured":"Engreitz, J. M. et al. Nov., Local regulation of gene expression by lncRNA promoters, transcription and splicing, Nature, vol. 539, no. 7629, pp. 452\u2013455, (2016). https:\/\/doi.org\/10.1038\/nature20149","DOI":"10.1038\/nature20149"},{"key":"54788_CR24","doi-asserted-by":"publisher","unstructured":"International Inflammatory Bowel Disease Genetics Consortium et al. et al. Fine-mapping inflammatory bowel disease loci to single-variant resolution, Nature, vol. 547, no. 7662, Art. no. 7662, Jul. (2017). https:\/\/doi.org\/10.1038\/nature22969","DOI":"10.1038\/nature22969"},{"key":"54788_CR25","doi-asserted-by":"publisher","unstructured":"Farh, K. K. H. et al. Feb., Genetic and epigenetic fine mapping of causal autoimmune disease variants, Nature, vol. 518, no. 7539, Art. no. 7539, (2015). https:\/\/doi.org\/10.1038\/nature13835","DOI":"10.1038\/nature13835"},{"key":"54788_CR26","doi-asserted-by":"publisher","unstructured":"Harrow, J. et al. The reference human genome annotation for The ENCODE Project. Genome Res. 22, no. https:\/\/doi.org\/10.1101\/gr.135350.111 (2012). 9, Art. 9, Sep.","DOI":"10.1101\/gr.135350.111"},{"key":"54788_CR27","doi-asserted-by":"publisher","unstructured":"Derrien, T. et al. The GENCODE v7 catalog of human long noncoding RNAs: Analysis of their gene structure, evolution, and expression. Genome Res. 22, https:\/\/doi.org\/10.1101\/gr.132159.111 (Sep. 2012). 9, Art. 9.","DOI":"10.1101\/gr.132159.111"},{"key":"54788_CR28","doi-asserted-by":"publisher","unstructured":"Pertea, M. et al. StringTie enables improved reconstruction of a transcriptome from RNA-seq reads, Nat. Biotechnol., vol. 33, no. 3, Art. no. 3, Mar. (2015). https:\/\/doi.org\/10.1038\/nbt.3122","DOI":"10.1038\/nbt.3122"},{"key":"54788_CR29","doi-asserted-by":"publisher","unstructured":"Shao, M. & Kingsford, C. Accurate assembly of transcripts through phase-preserving graph decomposition, Nat. Biotechnol., vol. 35, no. 12, Art. no. 12, Dec. (2017). https:\/\/doi.org\/10.1038\/nbt.4020","DOI":"10.1038\/nbt.4020"},{"key":"54788_CR30","doi-asserted-by":"publisher","unstructured":"Ponting, C. P. & Haerty, W. Genome-Wide Analysis of Human Long Noncoding RNAs: A Provocative Review. Annu. Rev. Genomics Hum. Genet. 23, 153\u2013172. https:\/\/doi.org\/10.1146\/annurev-genom-112921-123710 (Aug. 2022).","DOI":"10.1146\/annurev-genom-112921-123710"},{"key":"54788_CR31","doi-asserted-by":"publisher","unstructured":"Ouahed, J. et al. Nov., Mucosal Gene Expression in Pediatric and Adult Patients With Ulcerative Colitis Permits Modeling of Ideal Biopsy Collection Strategy for Transcriptomic Analysis, Inflamm. Bowel Dis., vol. 24, no. 12, pp. 2565\u20132578, (2018). https:\/\/doi.org\/10.1093\/ibd\/izy242","DOI":"10.1093\/ibd\/izy242"},{"key":"54788_CR32","doi-asserted-by":"publisher","unstructured":"S\u00e6terstad, S. et al. Profound gene expression changes in the epithelial monolayer of active ulcerative colitis and Crohn\u2019s disease. PLOS ONE. 17 (3), e0265189. https:\/\/doi.org\/10.1371\/journal.pone.0265189 (Mar. 2022).","DOI":"10.1371\/journal.pone.0265189"},{"key":"54788_CR33","doi-asserted-by":"publisher","unstructured":"Keith, B. P. et al. Colonic epithelial miR-31 associates with the development of Crohn\u2019s phenotypes. JCI Insight, 3, 19, p. e122788, https:\/\/doi.org\/10.1172\/jci.insight.122788","DOI":"10.1172\/jci.insight.122788"},{"key":"54788_CR34","unstructured":"Andrews, S. FastQC: a quality control tool for high throughput sequence data, [Online]. Available: http:\/\/www.bioinformatics.babraham.ac.uk\/projects\/fastqc\/"},{"key":"54788_CR35","doi-asserted-by":"publisher","unstructured":"Ewels, P., Magnusson, M., Lundin, S. & K\u00e4ller, M. MultiQC: summarize analysis results for multiple tools and samples in a single report. Bioinformatics, 32, 19, https:\/\/doi.org\/10.1093\/bioinformatics\/btw354","DOI":"10.1093\/bioinformatics\/btw354"},{"key":"54788_CR36","doi-asserted-by":"publisher","unstructured":"Wang, L. et al. Measure transcript integrity using RNA-seq data. BMC Bioinform. 17, 58. https:\/\/doi.org\/10.1186\/s12859-016-0922-z (Feb. 2016).","DOI":"10.1186\/s12859-016-0922-z"},{"key":"54788_CR37","doi-asserted-by":"publisher","unstructured":"Martin, M. Cutadapt removes adapter sequences from high-throughput sequencing reads, EMBnet.journal, vol. 17, no. 1, Art. no. 1, May (2011). https:\/\/doi.org\/10.14806\/ej.17.1.200","DOI":"10.14806\/ej.17.1.200"},{"key":"54788_CR38","doi-asserted-by":"publisher","unstructured":"Dobin, A. et al. STAR: ultrafast universal RNA-seq aligner. Bioinformatics 29 (1), 15\u201321. https:\/\/doi.org\/10.1093\/bioinformatics\/bts635 (Jan. 2013).","DOI":"10.1093\/bioinformatics\/bts635"},{"key":"54788_CR39","doi-asserted-by":"publisher","unstructured":"Niknafs, Y. S., Pandian, B., Iyer, H. K., Chinnaiyan, A. M. & Iyer, M. K. TACO produces robust multi-sample transcriptome assemblies from RNA-seq, Nat. Methods, vol. 14, no. 1, Art. no. 1, Jan. (2017). https:\/\/doi.org\/10.1038\/nmeth.4078","DOI":"10.1038\/nmeth.4078"},{"key":"54788_CR40","doi-asserted-by":"publisher","unstructured":"Pertea, G., Pertea, M. & Utilities, G. F. F. GffRead and GffCompare, F1000Research, vol. 9, p. ISCB Comm J-304, Sep. (2020). https:\/\/doi.org\/10.12688\/f1000research.23297.2","DOI":"10.12688\/f1000research.23297.2"},{"key":"54788_CR41","doi-asserted-by":"publisher","unstructured":"Li, J., Ju, Y., Zou, Q. & Ni, F. lncRNA localization and feature interpretability analysis. Mol. Ther. Nucleic Acids. 36 (1), 102425. https:\/\/doi.org\/10.1016\/j.omtn.2024.102425 (Mar. 2025).","DOI":"10.1016\/j.omtn.2024.102425"},{"key":"54788_CR42","doi-asserted-by":"publisher","unstructured":"Tong, X. & Liu, S. CPPred: coding potential prediction based on the global description of RNA sequence, Nucleic Acids Res., vol. 47, no. 8, p. e43, May (2019). https:\/\/doi.org\/10.1093\/nar\/gkz087","DOI":"10.1093\/nar\/gkz087"},{"key":"54788_CR43","doi-asserted-by":"publisher","unstructured":"Sun, L. et al. Utilizing sequence intrinsic composition to classify protein-coding and long non-coding transcripts. Nucleic Acids Res. 41, e166. https:\/\/doi.org\/10.1093\/nar\/gkt646 (Sep. 2013).","DOI":"10.1093\/nar\/gkt646"},{"key":"54788_CR44","doi-asserted-by":"publisher","unstructured":"Li, A., Zhang, J. & Zhou, Z. PLEK: a tool for predicting long non-coding RNAs and messenger RNAs based on an improved k-mer scheme. BMC Bioinform. 15 (1), 311. https:\/\/doi.org\/10.1186\/1471-2105-15-311 (Sep. 2014).","DOI":"10.1186\/1471-2105-15-311"},{"key":"54788_CR45","doi-asserted-by":"publisher","unstructured":"Patro, R., Duggal, G., Love, M. I., Irizarry, R. A. & Kingsford, C. Salmon: fast and bias-aware quantification of transcript expression using dual-phase inference, Nat. Methods, vol. 14, no. 4, pp. 417\u2013419, Apr. (2017). https:\/\/doi.org\/10.1038\/nmeth.4197","DOI":"10.1038\/nmeth.4197"},{"key":"54788_CR46","unstructured":"C. (Stony Brook University), Selective Alignment. Accessed: May 28, 2024. [Online]. Available: https:\/\/combine-lab.github.io\/alevin-tutorial\/2019\/selective-alignment\/"},{"key":"54788_CR47","doi-asserted-by":"publisher","unstructured":"Soneson, C., Love, M. I. & Robinson, M. D. Differential analyses for RNA-seq: transcript-level estimates improve gene-level inferences, Feb. 29, F1000Research: 4:1521. (2016). https:\/\/doi.org\/10.12688\/f1000research.7563.2","DOI":"10.12688\/f1000research.7563.2"},{"key":"54788_CR48","doi-asserted-by":"publisher","unstructured":"Robinson, M. D., McCarthy, D. J. & Smyth, G. K. edgeR: a Bioconductor package for differential expression analysis of digital gene expression data, Bioinformatics, vol. 26, no. 1, pp. 139\u2013140, Jan. (2010). https:\/\/doi.org\/10.1093\/bioinformatics\/btp616","DOI":"10.1093\/bioinformatics\/btp616"},{"key":"54788_CR49","doi-asserted-by":"publisher","unstructured":"Kaur, G. et al. Oct., GENCODE: massively expanding the lncRNA catalog through capture long-read RNA sequencing, BioRxiv Prepr. Serv. Biol., p. 2024.10.29.620654, (2024). https:\/\/doi.org\/10.1101\/2024.10.29.620654","DOI":"10.1101\/2024.10.29.620654"},{"key":"54788_CR50","doi-asserted-by":"publisher","unstructured":"Hon, C. C. et al. Mar., An atlas of human long non-coding RNAs with accurate 5\u2032 ends, Nature, vol. 543, no. 7644, Art. no. 7644, (2017). https:\/\/doi.org\/10.1038\/nature21374","DOI":"10.1038\/nature21374"},{"key":"54788_CR51","doi-asserted-by":"publisher","unstructured":"Volders, P. J. et al. Jan., LNCipedia 5: towards a reference set of human long non-coding RNAs, Nucleic Acids Res., vol. 47, no. D1, Art. no. D1, (2019). https:\/\/doi.org\/10.1093\/nar\/gky1031","DOI":"10.1093\/nar\/gky1031"},{"key":"54788_CR52","doi-asserted-by":"publisher","unstructured":"Boyd, M. et al. Apr., Characterization of the enhancer and promoter landscape of inflammatory bowel disease from human colon biopsies, Nat. Commun., vol. 9, no. 1, Art. no. 1, (2018). https:\/\/doi.org\/10.1038\/s41467-018-03766-z","DOI":"10.1038\/s41467-018-03766-z"},{"key":"54788_CR53","doi-asserted-by":"publisher","unstructured":"Hinrichs, A. S. The UCSC Genome Browser Database: update 2006, Nucleic Acids Res., vol. 34, no. 90001, Art. no. 90001, Jan. (2006). https:\/\/doi.org\/10.1093\/nar\/gkj144","DOI":"10.1093\/nar\/gkj144"},{"key":"54788_CR54","doi-asserted-by":"publisher","first-page":"e1003118","DOI":"10.1371\/journal.pcbi.1003118","volume":"9","author":"M Lawrence","year":"2013","unstructured":"Lawrence, M. et al. Software for computing and annotating genomic ranges. PLoS Comput. Biol. 9, e1003118. https:\/\/doi.org\/10.1371\/journal.pcbi.1003118 (2013). no. 8.","journal-title":"PLoS Comput. Biol."},{"key":"54788_CR55","doi-asserted-by":"publisher","unstructured":"Siepel, A. et al. Aug., Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes, Genome Res., vol. 15, no. 8, pp. 1034\u20131050, (2005). https:\/\/doi.org\/10.1101\/gr.3715005","DOI":"10.1101\/gr.3715005"},{"key":"54788_CR56","doi-asserted-by":"publisher","DOI":"10.18129\/B9.BIOC.PHASTCONS100WAY.UCSC.HG38","author":"R Castelo","year":"2017","unstructured":"Castelo, R. phastCons100way.UCSC.hg38. Bioconductor https:\/\/doi.org\/10.18129\/B9.BIOC.PHASTCONS100WAY.UCSC.HG38 (2017).","journal-title":"Bioconductor"},{"key":"54788_CR57","doi-asserted-by":"publisher","unstructured":"Quinlan, A. R. & Hall, I. M. BEDTools: a flexible suite of utilities for comparing genomic features, Bioinformatics, vol. 26, no. 6, pp. 841\u2013842, Mar. (2010). https:\/\/doi.org\/10.1093\/bioinformatics\/btq033","DOI":"10.1093\/bioinformatics\/btq033"},{"key":"54788_CR58","doi-asserted-by":"publisher","unstructured":"Risso, D., Ngai, J., Speed, T. P. & Dudoit, S. Normalization of RNA-seq data using factor analysis of control genes or samples, Nat. Biotechnol., vol. 32, no. 9, pp. 896\u2013902, Sep. (2014). https:\/\/doi.org\/10.1038\/nbt.2931","DOI":"10.1038\/nbt.2931"},{"key":"54788_CR59","doi-asserted-by":"publisher","unstructured":"Love, M. I., Huber, W. & Anders, S. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2. Genome Biol. 15, 550. https:\/\/doi.org\/10.1186\/s13059-014-0550-8 (Dec. 2014).","DOI":"10.1186\/s13059-014-0550-8"},{"key":"54788_CR60","doi-asserted-by":"publisher","unstructured":"Ignatiadis, N., Klaus, B., Zaugg, J. B. & Huber, W. Data-driven hypothesis weighting increases detection power in genome-scale multiple testing, Nat. Methods, vol. 13, no. 7, pp. 577\u2013580, Jul. (2016). https:\/\/doi.org\/10.1038\/nmeth.3885","DOI":"10.1038\/nmeth.3885"},{"key":"54788_CR61","doi-asserted-by":"publisher","unstructured":"Langfelder, P. & Horvath, S. WGCNA: an R package for weighted correlation network analysis. BMC Bioinform. 9 (1), 559. https:\/\/doi.org\/10.1186\/1471-2105-9-559 (Dec. 2008).","DOI":"10.1186\/1471-2105-9-559"},{"key":"54788_CR62","doi-asserted-by":"publisher","unstructured":"Shannon, P. et al. Cytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks. Genome Res. 13, https:\/\/doi.org\/10.1101\/gr.1239303 (Nov. 2003). 11, Art. 11.","DOI":"10.1101\/gr.1239303"},{"key":"54788_CR63","doi-asserted-by":"publisher","unstructured":"Yu, G., Wang, L. G., Han, Y. & He, Q. Y. clusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters. OMICS J. Integr. Biol. 16 (5), 284\u2013287. https:\/\/doi.org\/10.1089\/omi.2011.0118 (May 2012).","DOI":"10.1089\/omi.2011.0118"},{"key":"54788_CR64","doi-asserted-by":"publisher","unstructured":"Supek, F., Bo\u0161njak, M., \u0160kunca, N. & \u0160muc, T. REVIGO Summarizes and Visualizes Long Lists of Gene Ontology Terms, PLOS ONE, vol. 6, no. 7, Art. no. 7, Jul. (2011). https:\/\/doi.org\/10.1371\/journal.pone.0021800","DOI":"10.1371\/journal.pone.0021800"},{"key":"54788_CR65","doi-asserted-by":"publisher","unstructured":"Yu, G. Gene Ontology Semantic Similarity Analysis Using GOSemSim, in Stem Cell Transcriptional Networks, vol. 2117, B. L. Kidder, Ed., in Methods in Molecular Biology, vol. 2117., New York, NY: Springer US, pp. 207\u2013215. (2020). https:\/\/doi.org\/10.1007\/978-1-0716-0301-7_11","DOI":"10.1007\/978-1-0716-0301-7_11"},{"key":"54788_CR66","doi-asserted-by":"publisher","unstructured":"Chen, J. et al. Evolutionary analysis across mammals reveals distinct classes of long non-coding RNAs. Genome Biol. 17 (1), 19. https:\/\/doi.org\/10.1186\/s13059-016-0880-9 (Dec. 2016).","DOI":"10.1186\/s13059-016-0880-9"},{"key":"54788_CR67","unstructured":"Harris, R. Improved pairwise alignment of genomic DNA (The Pennsylvania State University, 2007)."},{"key":"54788_CR68","doi-asserted-by":"publisher","unstructured":"Dyer, S. C. et al. Ensembl., Nucleic Acids Res., vol. 53, no. D1, pp. D948\u2013D957, Jan. 2025, (2025). https:\/\/doi.org\/10.1093\/nar\/gkae1071","DOI":"10.1093\/nar\/gkae1071"},{"key":"54788_CR69","doi-asserted-by":"publisher","unstructured":"Blanchette, M. et al. Apr., Aligning Multiple Genomic Sequences With the Threaded Blockset Aligner, Genome Res., vol. 14, no. 4, pp. 708\u2013715, (2004). https:\/\/doi.org\/10.1101\/gr.1933104","DOI":"10.1101\/gr.1933104"},{"key":"54788_CR70","doi-asserted-by":"publisher","unstructured":"Schubach, M., Maass, T., Nazaretyan, L., R\u00f6ner, S. & Kircher, M. CADD v1.7: using protein language models, regulatory CNNs and other nucleotide-level scores to improve genome-wide variant predictions. Nucleic Acids Res. 52, D1143\u2013D1154. https:\/\/doi.org\/10.1093\/nar\/gkad989 (Jan. 2024). no. D1.","DOI":"10.1093\/nar\/gkad989"},{"key":"54788_CR71","doi-asserted-by":"publisher","unstructured":"Christmas, M. J. et al. Apr., Evolutionary constraint and innovation across hundreds of placental mammals, Science, vol. 380, no. 6643, p. eabn3943, (2023). https:\/\/doi.org\/10.1126\/science.abn3943","DOI":"10.1126\/science.abn3943"},{"key":"54788_CR72","doi-asserted-by":"publisher","unstructured":"The ENCODE Project Consortium. An integrated encyclopedia of DNA elements in the human genome, Nature, vol. 489, no. 7414, Art. no. 7414, Sep. (2012). https:\/\/doi.org\/10.1038\/nature11247","DOI":"10.1038\/nature11247"},{"key":"54788_CR73","doi-asserted-by":"publisher","unstructured":"Ernst, J. & Kellis, M. ChromHMM: automating chromatin-state discovery and characterization. Nat. Methods. 9 (3), 215\u2013216. https:\/\/doi.org\/10.1038\/nmeth.1906 (Mar. 2012).","DOI":"10.1038\/nmeth.1906"},{"key":"54788_CR74","doi-asserted-by":"publisher","unstructured":"Ernst, J. & Kellis, M. Chromatin-state discovery and genome annotation with ChromHMM, Nat. Protoc., vol. 12, no. 12, pp. 2478\u20132492, Dec. (2017). https:\/\/doi.org\/10.1038\/nprot.2017.124","DOI":"10.1038\/nprot.2017.124"},{"key":"54788_CR75","doi-asserted-by":"publisher","unstructured":"Roadmap Epigenomics Consortium. Integrative analysis of 111 reference human epigenomes. Nature 518 (7539), 317\u2013330. https:\/\/doi.org\/10.1038\/nature14248 (Feb. 2015).","DOI":"10.1038\/nature14248"},{"key":"54788_CR76","doi-asserted-by":"publisher","unstructured":"Zhang, Y. et al. Sep., Model-based Analysis of ChIP-Seq (MACS), Genome Biol., vol. 9, no. 9, p. R137, (2008). https:\/\/doi.org\/10.1186\/gb-2008-9-9-r137","DOI":"10.1186\/gb-2008-9-9-r137"},{"key":"54788_CR77","doi-asserted-by":"publisher","unstructured":"Zou, Z., Ohta, T. & Oki, S. ChIP-Atlas 3.0: a data-mining suite to explore chromosome architecture together with large-scale regulome data. Nucleic Acids Res. 52, W45\u2013W53. https:\/\/doi.org\/10.1093\/nar\/gkae358 (Jul. 2024).","DOI":"10.1093\/nar\/gkae358"},{"key":"54788_CR78","doi-asserted-by":"publisher","unstructured":"Zhao, J. et al. Genome-wide Identification of Polycomb-Associated RNAs by RIP-seq. Mol. Cell. 40 (6), 939\u2013953. https:\/\/doi.org\/10.1016\/j.molcel.2010.12.011 (Dec. 2010).","DOI":"10.1016\/j.molcel.2010.12.011"},{"key":"54788_CR79","doi-asserted-by":"publisher","unstructured":"Robinson, J. T. et al. Integrative genomics viewer. Nat. Biotechnol. 29 (1), 24\u201326. https:\/\/doi.org\/10.1038\/nbt.1754 (Jan. 2011).","DOI":"10.1038\/nbt.1754"},{"key":"54788_CR80","doi-asserted-by":"publisher","unstructured":"Thorvaldsdottir, H., Robinson, J. T. & Mesirov, J. P. Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration, Brief. Bioinform., vol. 14, no. 2, pp. 178\u2013192, Mar. (2013). https:\/\/doi.org\/10.1093\/bib\/bbs017","DOI":"10.1093\/bib\/bbs017"},{"key":"54788_CR81","doi-asserted-by":"publisher","unstructured":"Kavaklioglu, G. et al. Mar., The domesticated transposon protein L1TD1 associates with its ancestor L1 ORF1p to promote LINE-1 retrotransposition, eLife, vol. 13, p. RP96850, (2025). https:\/\/doi.org\/10.7554\/eLife.96850.4","DOI":"10.7554\/eLife.96850.4"},{"key":"54788_CR82","doi-asserted-by":"publisher","unstructured":"Xing, Z. et al. OLFM4 modulates intestinal inflammation by promoting IL-22\u2009+\u2009ILC3 in the gut. Commun. Biol. 7 (1), 914. https:\/\/doi.org\/10.1038\/s42003-024-06601-y (Jul. 2024).","DOI":"10.1038\/s42003-024-06601-y"},{"issue":"1","key":"54788_CR83","doi-asserted-by":"publisher","first-page":"20","DOI":"10.5217\/ir.2014.12.1.20","volume":"12","author":"JM Kim","year":"2014","unstructured":"Kim, J. M. Antimicrobial Proteins in Intestine and Inflammatory Bowel Diseases. Intest Res. 12 (1), 20. https:\/\/doi.org\/10.5217\/ir.2014.12.1.20 (2014).","journal-title":"Intest Res."},{"key":"54788_CR84","doi-asserted-by":"publisher","unstructured":"Yarani, R., Mirza, A. H., Kaur, S. & Pociot, F. The emerging role of lncRNAs in inflammatory bowel disease. Exp. Mol. Med. 50, 1\u201314. https:\/\/doi.org\/10.1038\/s12276-018-0188-9 (Dec. 2018).","DOI":"10.1038\/s12276-018-0188-9"},{"key":"54788_CR85","doi-asserted-by":"publisher","unstructured":"Yao, Y. et al. Mucus sialylation determines intestinal host-commensal homeostasis. Cell 185 (7), 1172\u20131188. https:\/\/doi.org\/10.1016\/j.cell.2022.02.013 (Mar. 2022). .e28.","DOI":"10.1016\/j.cell.2022.02.013"},{"key":"54788_CR86","doi-asserted-by":"publisher","unstructured":"Taniguchi, M. et al. Sialylation shapes mucus architecture inhibiting bacterial invasion in the colon. Mucosal Immunol. 16 (5), 624\u2013641. https:\/\/doi.org\/10.1016\/j.mucimm.2023.06.004 (Oct. 2023).","DOI":"10.1016\/j.mucimm.2023.06.004"},{"key":"54788_CR87","doi-asserted-by":"publisher","unstructured":"Macias-Ceja, D. C., Mendoza-Ballesteros, M. T., Ortega-Albiach, M., Barrachina, M. D. & Ortiz-Masi\u00e0, D. Role of the epithelial barrier in intestinal fibrosis associated with inflammatory bowel disease: relevance of the epithelial-to mesenchymal transition. Front. Cell. Dev. Biol. 11, 1258843. https:\/\/doi.org\/10.3389\/fcell.2023.1258843 (Sep. 2023).","DOI":"10.3389\/fcell.2023.1258843"},{"key":"54788_CR88","doi-asserted-by":"publisher","unstructured":"Jiang, H., Shen, J. & Ran, Z. Epithelial\u2013mesenchymal transition in Crohn\u2019s disease. Mucosal Immunol. 11 (2), 294\u2013303. https:\/\/doi.org\/10.1038\/mi.2017.107 (Mar. 2018).","DOI":"10.1038\/mi.2017.107"},{"key":"54788_CR89","doi-asserted-by":"publisher","unstructured":"Li, F. & Ding, J. Sialylation is involved in cell fate decision during development, reprogramming and cancer progression, Protein Cell, vol. 10, no. 8, pp. 550\u2013565, Aug. (2019). https:\/\/doi.org\/10.1007\/s13238-018-0597-5","DOI":"10.1007\/s13238-018-0597-5"},{"key":"54788_CR90","doi-asserted-by":"publisher","unstructured":"Chen, F. X., Smith, E. R. & Shilatifard, A. Born to run: control of transcription elongation by RNA polymerase II. Nat. Rev. Mol. Cell. Biol. 19 (7), 464\u2013478. https:\/\/doi.org\/10.1038\/s41580-018-0010-5 (Jul. 2018).","DOI":"10.1038\/s41580-018-0010-5"},{"key":"54788_CR91","doi-asserted-by":"publisher","unstructured":"Braga-Neto, M. B. et al. Deregulation of Long Intergenic Non-coding RNAs in CD4\u2009+\u2009T Cells of Lamina Propria in Crohn\u2019s Disease Through Transcriptome Profiling. J. Crohns Colitis. 14 (1), 96\u2013109. https:\/\/doi.org\/10.1093\/ecco-jcc\/jjz109 (Jan. 2020).","DOI":"10.1093\/ecco-jcc\/jjz109"},{"key":"54788_CR92","doi-asserted-by":"publisher","unstructured":"Sanketi, B. D. et al. Pitx2 patterns an accelerator-brake mechanical feedback through latent TGF\u03b2 to rotate the gut. Science 377, eabl3921. https:\/\/doi.org\/10.1126\/science.abl3921 (Sep. 2022). no. 6613.","DOI":"10.1126\/science.abl3921"},{"key":"54788_CR93","doi-asserted-by":"publisher","unstructured":"Welsh, I. C. et al. Integration of Left-Right Pitx2 Transcription and Wnt Signaling Drives Asymmetric Gut Morphogenesis via Daam2. Dev. Cell. 26 (6), 629\u2013644. https:\/\/doi.org\/10.1016\/j.devcel.2013.07.019 (Sep. 2013).","DOI":"10.1016\/j.devcel.2013.07.019"},{"key":"54788_CR94","doi-asserted-by":"publisher","unstructured":"Hamdan, F. H. et al. Intestinal Stem Cells from Patients with Inflammatory Bowel Disease Retain an Epigenetic Memory of Inflammation, May 25, Molecular Biology. (2025). https:\/\/doi.org\/10.1101\/2025.05.24.655923","DOI":"10.1101\/2025.05.24.655923"}],"container-title":["Scientific Reports"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.nature.com\/articles\/s41598-026-54788-3","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/www.nature.com\/articles\/s41598-026-54788-3.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/www.nature.com\/articles\/s41598-026-54788-3.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,8,3]],"date-time":"2026-08-03T09:18:13Z","timestamp":1785748693000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.nature.com\/articles\/s41598-026-54788-3"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,5,25]]},"references-count":94,"journal-issue":{"issue":"1","published-online":{"date-parts":[[2026,12]]}},"alternative-id":["54788"],"URL":"https:\/\/doi.org\/10.1038\/s41598-026-54788-3","relation":{"has-preprint":[{"id-type":"doi","id":"10.1101\/2025.09.30.674088","asserted-by":"object"}]},"ISSN":["2045-2322"],"issn-type":[{"value":"2045-2322","type":"electronic"}],"subject":[],"published":{"date-parts":[[2026,5,25]]},"assertion":[{"value":"1 October 2025","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"15 May 2026","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"25 May 2026","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"The authors declare no competing interests.","order":1,"name":"Ethics","label":"Competing interests","group":{"name":"EthicsHeading","label":"Declarations"}}],"article-number":"23790"}}