{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,10,11]],"date-time":"2025-10-11T08:27:13Z","timestamp":1760171233975,"version":"3.41.2"},"reference-count":12,"publisher":"Oxford University Press (OUP)","license":[{"start":{"date-parts":[[2021,7,23]],"date-time":"2021-07-23T00:00:00Z","timestamp":1626998400000},"content-version":"vor","delay-in-days":203,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["31671375"],"award-info":[{"award-number":["31671375"]}],"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":["31801120"],"award-info":[{"award-number":["31801120"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"name":"The research start-up fellowship of the University of the Sunshine Coast to M.Z."},{"DOI":"10.13039\/501100012166","name":"National Key Research and Development Program of China","doi-asserted-by":"publisher","award":["2017YFC1201200"],"award-info":[{"award-number":["2017YFC1201200"]}],"id":[{"id":"10.13039\/501100012166","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2021,7,23]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Circular RNA (circRNA) is a highly stable, single-stranded, closed-loop RNA that works as RNA or as a protein decoy to regulate gene expression. In humans, thousands of circRNA transcriptional products precisely express in specific developmental stages, tissues and cell types. Due to their stability and specificity, circRNAs are ideal biomarkers for cancer diagnosis and prognosis. To provide an integrated and standardized circRNA expression profile for human cancers, we performed extensive data curation across 11 technical platforms, collecting 48 expression profile data sets for 18 cancer types and amassing 860\u2009751 expression records. We also identified 189\u2009193 differential expression signatures that are significantly different between normal and cancer samples. All the pre-calculated expression analysis results are organized into 132 plain text files for bulk download. Our online interface, circExp, provides data browsing and search functions. For each data set, a dynamic expression heatmap provides a profile overview. Based on the processed data, we found that 52 circRNAs were consistently and differentially expressed in 20 or more processed analyses. By mapping those circRNAs to their parent protein-coding genes, we found that they may have profoundly affected the survival of 10\u2009797 patients in the The Cancer Genome Atlas pan-cancer data set. In sum, we developed circExp and demonstrated that it is useful to identify circRNAs that have potential diagnostic and prognostic significance for a variety of cancer types. In this online and reusable database, found at http:\/\/soft.bioinfo-minzhao.org\/circexp, we have provided pre-calculated expression data about circRNAs and their parental genes, as well as data browsing and searching functions.<\/jats:p>\n               <jats:p>Database URL: http:\/\/soft.bioinfominzhao.org\/circexp\/<\/jats:p>","DOI":"10.1093\/database\/baab045","type":"journal-article","created":{"date-parts":[[2021,7,13]],"date-time":"2021-07-13T11:18:23Z","timestamp":1626175103000},"source":"Crossref","is-referenced-by-count":6,"title":["circExp database: an online transcriptome platform for human circRNA expressions in cancers"],"prefix":"10.1093","volume":"2021","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-5498-3434","authenticated-orcid":false,"given":"Min","family":"Zhao","sequence":"first","affiliation":[{"name":"School of Science and Engineering, University of the Sunshine Coast, Maroochydore DC, QLD 4558, Australia"}]},{"given":"Yining","family":"Liu","sequence":"additional","affiliation":[{"name":"The School of Public Health, Institute for Chemical Carcinogenesis, Guangzhou Medical University, Guangzhou 510182, China"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7735-5748","authenticated-orcid":false,"given":"Hong","family":"Qu","sequence":"additional","affiliation":[{"name":"Center for Bioinformatics, State Key Laboratory of Protein and Plant Gene Research, College of Life Sciences, Peking University, Beijing 100871, P.R. China"}]}],"member":"286","published-online":{"date-parts":[[2021,7,23]]},"reference":[{"key":"2021072310594747000_R1","doi-asserted-by":"crossref","first-page":"205","DOI":"10.1038\/nrm.2015.32","article-title":"The biogenesis and emerging roles of circular RNAs","volume":"17","author":"Chen","year":"2016","journal-title":"Nat. Rev. Mol. Cell Biol."},{"key":"2021072310594747000_R2","doi-asserted-by":"crossref","first-page":"1829","DOI":"10.1261\/rna.047126.114","article-title":"Circular RNAs: diversity of form and function","volume":"20","author":"Lasda","year":"2014","journal-title":"RNA"},{"key":"2021072310594747000_R3","doi-asserted-by":"crossref","DOI":"10.3390\/genes8120353","article-title":"Circular RNAs (circRNAs) in health and disease","volume":"8","author":"Haque","year":"2017","journal-title":"Genes"},{"key":"2021072310594747000_R4","doi-asserted-by":"crossref","DOI":"10.1186\/s12864-016-2904-y","article-title":"Concordance of copy number loss and down-regulation of tumor suppressor genes: a pan-cancer study","volume":"17","author":"Zhao","year":"2016","journal-title":"BMC Genomics"},{"key":"2021072310594747000_R5","doi-asserted-by":"crossref","first-page":"1666","DOI":"10.1261\/rna.043687.113","article-title":"circBase: a database for circular RNAs","volume":"20","author":"Glazar","year":"2014","journal-title":"RNA"},{"key":"2021072310594747000_R6","doi-asserted-by":"crossref","first-page":"1595","DOI":"10.1093\/bioinformatics\/btw017","article-title":"lnCaNet: pan-cancer co-expression network for human lncRNA and cancer genes","volume":"32","author":"Liu","year":"2016","journal-title":"Bioinformatics"},{"key":"2021072310594747000_R7","doi-asserted-by":"crossref","first-page":"401","DOI":"10.1158\/2159-8290.CD-12-0095","article-title":"The cBio cancer genomics portal: an open platform for exploring multidimensional cancer genomics data","volume":"2","author":"Cerami","year":"2012","journal-title":"Cancer Discov."},{"key":"2021072310594747000_R8","article-title":"Copy number alteration of neuropeptides and receptors in multiple cancers","volume":"7","author":"Zhao","year":"2017","journal-title":"Sci. Rep."},{"key":"2021072310594747000_R9","doi-asserted-by":"crossref","DOI":"10.1038\/srep37358","article-title":"Concordance between somatic copy number loss and down-regulated expression: a pan-cancer study of cancer predisposition genes","volume":"6","author":"Wei","year":"2016","journal-title":"Sci. Rep."},{"key":"2021072310594747000_R10","article-title":"CNVannotator: a comprehensive annotation server for copy number variation in the human genome","volume":"8","author":"Zhao","year":"2013","journal-title":"PLoS One"},{"key":"2021072310594747000_R11","doi-asserted-by":"crossref","first-page":"1711","DOI":"10.1039\/C9RA08525D","article-title":"Circular RNA PTK2 modifies the progression and radiosensitivity in gastric cancer via miR-369-3p\/ZEB1 axis","volume":"10","author":"Liu","year":"2020","journal-title":"RSC Adv."},{"key":"2021072310594747000_R12","doi-asserted-by":"crossref","first-page":"5939","DOI":"10.2147\/OTT.S253468","article-title":"Circ-PRKDC contributes to 5-fluorouracil resistance of colorectal cancer cells by regulating miR-375\/FOXM1 Axis and Wnt\/beta-catenin pathway","volume":"13","author":"Chen","year":"2020","journal-title":"Onco Targets Ther."}],"container-title":["Database"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/academic.oup.com\/database\/article-pdf\/doi\/10.1093\/database\/baab045\/39293670\/baab045.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"http:\/\/academic.oup.com\/database\/article-pdf\/doi\/10.1093\/database\/baab045\/39293670\/baab045.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2021,7,23]],"date-time":"2021-07-23T11:00:22Z","timestamp":1627038022000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/database\/article\/doi\/10.1093\/database\/baab045\/6326501"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2021,1,1]]},"references-count":12,"URL":"https:\/\/doi.org\/10.1093\/database\/baab045","relation":{},"ISSN":["1758-0463"],"issn-type":[{"type":"electronic","value":"1758-0463"}],"subject":[],"published-other":{"date-parts":[[2021,1,1]]},"published":{"date-parts":[[2021,1,1]]},"article-number":"baab045"}}