{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,6]],"date-time":"2026-03-06T18:23:22Z","timestamp":1772821402816,"version":"3.50.1"},"reference-count":49,"publisher":"Elsevier BV","license":[{"start":{"date-parts":[[2025,10,1]],"date-time":"2025-10-01T00:00:00Z","timestamp":1759276800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2025,10,1]],"date-time":"2025-10-01T00:00:00Z","timestamp":1759276800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2025,10,1]],"date-time":"2025-10-01T00:00:00Z","timestamp":1759276800000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-017"},{"start":{"date-parts":[[2025,10,1]],"date-time":"2025-10-01T00:00:00Z","timestamp":1759276800000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-037"},{"start":{"date-parts":[[2025,10,1]],"date-time":"2025-10-01T00:00:00Z","timestamp":1759276800000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-012"},{"start":{"date-parts":[[2025,10,1]],"date-time":"2025-10-01T00:00:00Z","timestamp":1759276800000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-029"},{"start":{"date-parts":[[2025,10,1]],"date-time":"2025-10-01T00:00:00Z","timestamp":1759276800000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-004"}],"funder":[{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["81460092"],"award-info":[{"award-number":["81460092"]}],"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":["82260211"],"award-info":[{"award-number":["82260211"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Experimental Eye Research"],"published-print":{"date-parts":[[2025,10]]},"DOI":"10.1016\/j.exer.2025.110578","type":"journal-article","created":{"date-parts":[[2025,8,12]],"date-time":"2025-08-12T15:34:20Z","timestamp":1755012860000},"page":"110578","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":0,"special_numbering":"C","title":["Single-cell transcriptomics reveals that RNA pseudouridylation-related gene NHP2 promotes the progression of uveal melanoma and validated in vivo and in vitro"],"prefix":"10.1016","volume":"259","author":[{"given":"Yulin","family":"Tao","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Haibo","family":"Zhu","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yirui","family":"Peng","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yeting","family":"Lin","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Weiwen","family":"Hu","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yicang","family":"Wang","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Minqi","family":"Xiong","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jun","family":"Ouyang","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Xiaoyong","family":"Qu","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0009-0009-8358-901X","authenticated-orcid":false,"given":"Qiong","family":"Zhou","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"78","reference":[{"key":"10.1016\/j.exer.2025.110578_bib1","doi-asserted-by":"crossref","first-page":"92","DOI":"10.1097\/PPO.0000000000000708","article-title":"Updates in the management of uveal melanoma","volume":"30","author":"Barbi","year":"2024","journal-title":"Cancer J."},{"key":"10.1016\/j.exer.2025.110578_bib2","doi-asserted-by":"crossref","first-page":"303","DOI":"10.1038\/s41568-020-0253-2","article-title":"Role of RNA modifications in cancer","volume":"20","author":"Barbieri","year":"2020","journal-title":"Nat. Rev. Cancer"},{"key":"10.1016\/j.exer.2025.110578_bib3","doi-asserted-by":"crossref","first-page":"541","DOI":"10.1038\/s41591-018-0014-x","article-title":"Understanding the tumor immune microenvironment (TIME) for effective therapy","volume":"24","author":"Binnewies","year":"2018","journal-title":"Nat. Med."},{"key":"10.1016\/j.exer.2025.110578_bib4","doi-asserted-by":"crossref","DOI":"10.1016\/j.critrevonc.2024.104276","article-title":"The treatment of advanced melanoma: current approaches and new challenges","volume":"196","author":"Boutros","year":"2024","journal-title":"Crit. Rev. Oncol. Hematol."},{"key":"10.1016\/j.exer.2025.110578_bib5","doi-asserted-by":"crossref","first-page":"38","DOI":"10.1007\/s10142-024-01313-2","article-title":"DKC1 aggravates gastric cancer cell migration and invasion through up-regulating the expression of TNFAIP6","volume":"24","author":"Chen","year":"2024","journal-title":"Funct. Integr. Genomics"},{"key":"10.1016\/j.exer.2025.110578_bib6","doi-asserted-by":"crossref","first-page":"909","DOI":"10.1038\/s41388-020-01570-y","article-title":"NOP10 predicts lung cancer prognosis and its associated small nucleolar RNAs drive proliferation and migration","volume":"40","author":"Cui","year":"2021","journal-title":"Oncogene"},{"key":"10.1016\/j.exer.2025.110578_bib7","doi-asserted-by":"crossref","DOI":"10.1038\/s41467-019-14256-1","article-title":"Single-cell analysis reveals new evolutionary complexity in uveal melanoma","volume":"11","author":"Durante","year":"2020","journal-title":"Nat. Commun."},{"key":"10.1016\/j.exer.2025.110578_bib8","doi-asserted-by":"crossref","first-page":"876","DOI":"10.1038\/s41586-024-07690-9","article-title":"Cellular adaptation to cancer therapy along a resistance continuum","volume":"631","author":"Fran\u00e7a","year":"2024","journal-title":"Nature"},{"key":"10.1016\/j.exer.2025.110578_bib9","doi-asserted-by":"crossref","DOI":"10.3390\/cancers14133094","article-title":"Recent advances and challenges in uveal melanoma immunotherapy","volume":"14","author":"Fu","year":"2022","journal-title":"Cancers (Basel)"},{"key":"10.1016\/j.exer.2025.110578_bib10","doi-asserted-by":"crossref","first-page":"21","DOI":"10.1186\/1755-8794-3-21","article-title":"SEURAT: visual analytics for the integrated analysis of microarray data","volume":"3","author":"Gribov","year":"2010","journal-title":"BMC Med. Genom."},{"key":"10.1016\/j.exer.2025.110578_bib11","doi-asserted-by":"crossref","first-page":"296","DOI":"10.1186\/s13059-019-1874-1","article-title":"Normalization and variance stabilization of single-cell RNA-seq data using regularized negative binomial regression","volume":"20","author":"Hafemeister","year":"2019","journal-title":"Genome Biol."},{"key":"10.1016\/j.exer.2025.110578_bib12","doi-asserted-by":"crossref","first-page":"73","DOI":"10.1146\/annurev-immunol-101921-045401","article-title":"RNA modification in the immune System","volume":"41","author":"Han","year":"2023","journal-title":"Annu. Rev. Immunol."},{"key":"10.1016\/j.exer.2025.110578_bib13","doi-asserted-by":"crossref","first-page":"31","DOI":"10.1158\/2159-8290.CD-21-1059","article-title":"Hallmarks of cancer: new dimensions","volume":"12","author":"Hanahan","year":"2022","journal-title":"Cancer Discov."},{"key":"10.1016\/j.exer.2025.110578_bib14","doi-asserted-by":"crossref","first-page":"1560","DOI":"10.1080\/15476286.2020.1722449","article-title":"RNA modifications and cancer","volume":"17","author":"Haruehanroengra","year":"2020","journal-title":"RNA Biol."},{"key":"10.1016\/j.exer.2025.110578_bib15","doi-asserted-by":"crossref","DOI":"10.7554\/eLife.84314","article-title":"Complementary CRISPR screen highlights the contrasting role of membrane-bound and soluble ICAM-1 in regulating antigen-specific tumor cell killing by cytotoxic T cells","volume":"12","author":"Herzfeldt","year":"2023","journal-title":"eLife"},{"key":"10.1016\/j.exer.2025.110578_bib16","doi-asserted-by":"crossref","first-page":"1139","DOI":"10.1016\/j.ophtha.2018.03.011","article-title":"The cancer genome Atlas Project: an integrated molecular view of uveal melanoma","volume":"125","author":"Jager","year":"2018","journal-title":"Ophthalmology"},{"key":"10.1016\/j.exer.2025.110578_bib17","doi-asserted-by":"crossref","first-page":"24","DOI":"10.1038\/s41572-020-0158-0","article-title":"Uveal melanoma","volume":"6","author":"Jager","year":"2020","journal-title":"Nat. Rev. Dis. Primers"},{"key":"10.1016\/j.exer.2025.110578_bib18","doi-asserted-by":"crossref","first-page":"161","DOI":"10.1186\/s12943-019-1088-x","article-title":"m(6)A modification suppresses ocular melanoma through modulating HINT2 mRNA translation","volume":"18","author":"Jia","year":"2019","journal-title":"Mol. Cancer"},{"key":"10.1016\/j.exer.2025.110578_bib19","doi-asserted-by":"crossref","first-page":"72","DOI":"10.1158\/2326-6066.CIR-23-0205","article-title":"The tautomerase activity of tumor exosomal MIF promotes pancreatic cancer progression by modulating MDSC differentiation","volume":"12","author":"Jia","year":"2024","journal-title":"Cancer Immunol. Res."},{"key":"10.1016\/j.exer.2025.110578_bib20","doi-asserted-by":"crossref","first-page":"6238","DOI":"10.1158\/0008-5472.CAN-18-3560","article-title":"Comprehensive benchmarking and integration of tumor microenvironment cell estimation methods","volume":"79","author":"Jimenez-Sanchez","year":"2019","journal-title":"Cancer Res."},{"key":"10.1016\/j.exer.2025.110578_bib21","doi-asserted-by":"crossref","first-page":"576","DOI":"10.1097\/PAT.0b013e3283583bf6","article-title":"Expressional analysis of NOLA1, NOLA2, NOLA3 and DKC1, the core proteins in H\/ACA riboproteins, in gastric and colorectal cancers","volume":"44","author":"Kim","year":"2012","journal-title":"Pathology"},{"key":"10.1016\/j.exer.2025.110578_bib22","doi-asserted-by":"crossref","first-page":"1289","DOI":"10.1038\/s41592-019-0619-0","article-title":"Fast, sensitive and accurate integration of single-cell data with Harmony","volume":"16","author":"Korsunsky","year":"2019","journal-title":"Nat. Methods"},{"key":"10.1016\/j.exer.2025.110578_bib23","doi-asserted-by":"crossref","first-page":"1583","DOI":"10.1016\/j.ccell.2022.11.001","article-title":"Mapping single-cell transcriptomes in the intra-tumoral and associated territories of kidney cancer","volume":"40","author":"Li","year":"2022","journal-title":"Cancer Cell"},{"key":"10.1016\/j.exer.2025.110578_bib24","doi-asserted-by":"crossref","first-page":"417","DOI":"10.1016\/j.cels.2015.12.004","article-title":"The Molecular Signatures Database (MSigDB) hallmark gene set collection","volume":"1","author":"Liberzon","year":"2015","journal-title":"Cell Syst."},{"key":"10.1016\/j.exer.2025.110578_bib25","doi-asserted-by":"crossref","DOI":"10.1101\/mcs.a006111","article-title":"Intra- and intertumoral heterogeneity of liver metastases in a patient with uveal melanoma revealed by single-cell RNA sequencing","volume":"7","author":"Lin","year":"2021","journal-title":"Cold Spring Harb Mol Case Stud"},{"key":"10.1016\/j.exer.2025.110578_bib26","doi-asserted-by":"crossref","first-page":"922","DOI":"10.1080\/15592294.2022.2088047","article-title":"NSUN2-mediated RNA m(5)C modification modulates uveal melanoma cell proliferation and migration","volume":"17","author":"Luo","year":"2022","journal-title":"Epigenetics"},{"key":"10.1016\/j.exer.2025.110578_bib27","doi-asserted-by":"crossref","first-page":"25395","DOI":"10.18632\/aging.104142","article-title":"Steroid 5 alpha-reductase 3 (SRD5A3) promotes tumor growth and predicts poor survival of human hepatocellular carcinoma (HCC)","volume":"12","author":"Mai","year":"2020","journal-title":"Aging (Albany NY)"},{"key":"10.1016\/j.exer.2025.110578_bib28","doi-asserted-by":"crossref","first-page":"7205","DOI":"10.1158\/0008-5472.CAN-04-1750","article-title":"Gene expression profiling in uveal melanoma reveals two molecular classes and predicts metastatic death","volume":"64","author":"Onken","year":"2004","journal-title":"Cancer Res."},{"key":"10.1016\/j.exer.2025.110578_bib29","doi-asserted-by":"crossref","first-page":"74","DOI":"10.1016\/j.tig.2022.10.004","article-title":"Genetic and epigenetic defects of the RNA modification machinery in cancer","volume":"39","author":"Orsolic","year":"2023","journal-title":"Trends Genet."},{"key":"10.1016\/j.exer.2025.110578_bib30","doi-asserted-by":"crossref","first-page":"843","DOI":"10.1016\/j.cell.2018.06.025","article-title":"Toward minimal residual disease-directed therapy in Melanoma","volume":"174","author":"Rambow","year":"2018","journal-title":"Cell"},{"key":"10.1016\/j.exer.2025.110578_bib31","doi-asserted-by":"crossref","first-page":"204","DOI":"10.1016\/j.ccell.2017.07.003","article-title":"Integrative analysis identifies four molecular and clinical subsets in uveal melanoma","volume":"32","author":"Robertson","year":"2017","journal-title":"Cancer Cell"},{"key":"10.1016\/j.exer.2025.110578_bib32","doi-asserted-by":"crossref","first-page":"1190","DOI":"10.1016\/j.ajhg.2016.09.008","article-title":"Comprehensive genetic landscape of uveal melanoma by whole-genome sequencing","volume":"99","author":"Royer-Bertrand","year":"2016","journal-title":"Am. J. Hum. Genet."},{"key":"10.1016\/j.exer.2025.110578_bib33","article-title":"1,4-dihydroxy quininib modulates the secretome of uveal melanoma tumour explants and a marker of oxidative phosphorylation in a metastatic xenograft model","volume":"9","author":"Slater","year":"2022","journal-title":"Front. Med."},{"key":"10.1016\/j.exer.2025.110578_bib34","doi-asserted-by":"crossref","DOI":"10.1016\/j.preteyeres.2019.100800","article-title":"Uveal melanoma: towards a molecular understanding","volume":"75","author":"Smit","year":"2020","journal-title":"Prog. Retin. Eye Res."},{"key":"10.1016\/j.exer.2025.110578_bib35","doi-asserted-by":"crossref","DOI":"10.1016\/j.preteyeres.2021.100968","article-title":"Translation of single-cell transcriptomic analysis of uveal melanomas to clinical oncology","volume":"85","author":"Strub","year":"2021","journal-title":"Prog. Retin. Eye Res."},{"key":"10.1016\/j.exer.2025.110578_bib36","doi-asserted-by":"crossref","first-page":"714","DOI":"10.1038\/s41580-023-00622-x","article-title":"Regulation and functions of non-m(6)A mRNA modifications","volume":"24","author":"Sun","year":"2023","journal-title":"Nat. Rev. Mol. Cell Biol."},{"key":"10.1016\/j.exer.2025.110578_bib37","doi-asserted-by":"crossref","first-page":"204","DOI":"10.1038\/s41416-023-02275-1","article-title":"RNA modifications in cancer","volume":"129","author":"Tang","year":"2023","journal-title":"Br. J. Cancer"},{"key":"10.1016\/j.exer.2025.110578_bib38","doi-asserted-by":"crossref","first-page":"231","DOI":"10.1007\/978-1-0716-2926-0_18","article-title":"A guide on analyzing flow cytometry data using clustering methods and nonlinear dimensionality reduction (tSNE or UMAP)","volume":"2616","author":"Ujas","year":"2023","journal-title":"Methods Mol. Biol."},{"key":"10.1016\/j.exer.2025.110578_bib39","doi-asserted-by":"crossref","first-page":"319","DOI":"10.1186\/s12935-024-03505-z","article-title":"Identification of the tumor metastasis-related tumor subgroups overexpressed NENF in triple-negative breast cancer by single-cell transcriptomics","volume":"24","author":"Wang","year":"2024","journal-title":"Cancer Cell Int."},{"key":"10.1016\/j.exer.2025.110578_bib40","doi-asserted-by":"crossref","first-page":"579","DOI":"10.1038\/s41556-023-01114-y","article-title":"Dynamic antagonism between key repressive pathways maintains the placental epigenome","volume":"25","author":"Weigert","year":"2023","journal-title":"Nat. Cell Biol."},{"key":"10.1016\/j.exer.2025.110578_bib41","doi-asserted-by":"crossref","first-page":"1086","DOI":"10.1016\/j.molcel.2020.04.023","article-title":"Using chemical epigenetics to target cancer","volume":"78","author":"Wimalasena","year":"2020","journal-title":"Mol. Cell"},{"key":"10.1016\/j.exer.2025.110578_bib42","article-title":"A necroptosis-related prognostic model of uveal Melanoma was constructed by single-cell sequencing analysis and weighted Co-Expression network analysis based on public databases","volume":"13","author":"Xie","year":"2022","journal-title":"Front. Immunol."},{"key":"10.1016\/j.exer.2025.110578_bib43","doi-asserted-by":"crossref","first-page":"1281","DOI":"10.1038\/s41388-021-02146-0","article-title":"The m(6)A reading protein YTHDF3 potentiates tumorigenicity of cancer stem-like cells in ocular melanoma through facilitating CTNNB1 translation","volume":"41","author":"Xu","year":"2022","journal-title":"Oncogene"},{"key":"10.1016\/j.exer.2025.110578_bib44","doi-asserted-by":"crossref","first-page":"149","DOI":"10.1016\/j.jare.2022.04.006","article-title":"Integrated immunogenomic analysis of single-cell and bulk tissue transcriptome profiling unravels a macrophage activation paradigm associated with immunologically and clinically distinct behaviors in ovarian cancer","volume":"44","author":"Yan","year":"2023","journal-title":"J. Adv. Res."},{"key":"10.1016\/j.exer.2025.110578_bib45","doi-asserted-by":"crossref","DOI":"10.1186\/s13059-021-02308-z","article-title":"Histone lactylation drives oncogenesis by facilitating m6A reader protein YTHDF2 expression in ocular melanoma","volume":"22","author":"Yu","year":"2021","journal-title":"Genome Biol."},{"key":"10.1016\/j.exer.2025.110578_bib46","doi-asserted-by":"crossref","first-page":"7250","DOI":"10.1038\/s41467-022-34877-3","article-title":"A single-cell analysis reveals tumor heterogeneity and immune environment of acral melanoma","volume":"13","author":"Zhang","year":"2022","journal-title":"Nat. Commun."},{"key":"10.1016\/j.exer.2025.110578_bib47","doi-asserted-by":"crossref","DOI":"10.1016\/j.exer.2022.109214","article-title":"Construction and verification of a hypoxia-related nine-gene prognostic model in uveal melanoma based on integrated single-cell and bulk RNA sequencing analyses","volume":"223","author":"Zhang","year":"2022","journal-title":"Exp. Eye Res."},{"key":"10.1016\/j.exer.2025.110578_bib48","doi-asserted-by":"crossref","first-page":"260","DOI":"10.1186\/s12957-021-02377-1","article-title":"Over-expression of SRD5A3 and its prognostic significance in breast cancer","volume":"19","author":"Zhang","year":"2021","journal-title":"World J. Surg. Oncol."},{"key":"10.1016\/j.exer.2025.110578_bib49","doi-asserted-by":"crossref","first-page":"792","DOI":"10.1007\/s13238-020-00733-7","article-title":"Mapping the epigenetic modifications of DNA and RNA","volume":"11","author":"Zhao","year":"2020","journal-title":"Protein Cell"}],"container-title":["Experimental Eye Research"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0014483525003495?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0014483525003495?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2026,3,6]],"date-time":"2026-03-06T12:25:47Z","timestamp":1772799947000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S0014483525003495"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2025,10]]},"references-count":49,"alternative-id":["S0014483525003495"],"URL":"https:\/\/doi.org\/10.1016\/j.exer.2025.110578","relation":{},"ISSN":["0014-4835"],"issn-type":[{"value":"0014-4835","type":"print"}],"subject":[],"published":{"date-parts":[[2025,10]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"Single-cell transcriptomics reveals that RNA pseudouridylation-related gene NHP2 promotes the progression of uveal melanoma and validated in vivo and in vitro","name":"articletitle","label":"Article Title"},{"value":"Experimental Eye Research","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.exer.2025.110578","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2025 Elsevier Ltd. All rights are reserved, including those for text and data mining, AI training, and similar technologies.","name":"copyright","label":"Copyright"}],"article-number":"110578"}}