{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,29]],"date-time":"2026-04-29T16:35:44Z","timestamp":1777480544036,"version":"3.51.4"},"reference-count":17,"publisher":"SAGE Publications","issue":"4","license":[{"start":{"date-parts":[[2022,11,1]],"date-time":"2022-11-01T00:00:00Z","timestamp":1667260800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/journals.sagepub.com\/page\/policies\/text-and-data-mining-license"}],"content-domain":{"domain":["journals.sagepub.com"],"crossmark-restriction":true},"short-container-title":["Cancer Biomarkers"],"published-print":{"date-parts":[[2022,11]]},"abstract":"<jats:sec>\n                    <jats:title>BACKGROUND:<\/jats:title>\n                    <jats:p>Given the growing interest in using microRNAs (miRNAs) as biomarkers of early disease, establishment of robust protocols and platforms for miRNA quantification in biological fluids is critical.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>OBJECTIVE:<\/jats:title>\n                    <jats:p>The goal of this multi-center pilot study was to evaluate the reproducibility of NanoString nCounter\u2122 technology when analyzing the abundance of miRNAs in plasma and cystic fluid from patients with pancreatic lesions.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>METHODS:<\/jats:title>\n                    <jats:p>Using sample triplicates analyzed across three study sites, we assessed potential sources of variability (RNA isolation, sample processing\/ligation, hybridization, and lot-to-lot variability) that may contribute to suboptimal reproducibility of miRNA abundance when using nCounter\u2122, and evaluated expression of positive and negative controls, housekeeping genes, spike-in genes, and miRNAs.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>RESULTS:<\/jats:title>\n                    <jats:p>Positive controls showed a high correlation across samples from each site (median correlation coefficient, [Formula: see text] 0.9). Most negative control probes had expression levels below background. Housekeeping and spike-in genes each showed a similar distribution of expression and comparable pairwise correlation coefficients of replicate samples across sites. A total of 804 miRNAs showed a similar distribution of pairwise correlation coefficients between replicate samples ([Formula: see text] 0.93). After normalization and selecting miRNAs with expression levels above zero in 80% of samples, 55 miRNAs were identified; heatmap and principal component analysis revealed similar expression patterns and clustering in replicate samples.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>CONCLUSIONS:<\/jats:title>\n                    <jats:p>Findings from this pilot investigation suggest the nCounter platform can yield reproducible results across study sites. This study underscores the importance of implementing quality control procedures when designing multi-center evaluations of miRNA abundance.<\/jats:p>\n                  <\/jats:sec>","DOI":"10.3233\/cbm-210255","type":"journal-article","created":{"date-parts":[[2022,4,26]],"date-time":"2022-04-26T13:13:18Z","timestamp":1650978798000},"page":"467-478","update-policy":"https:\/\/doi.org\/10.1177\/sage-journals-update-policy","source":"Crossref","is-referenced-by-count":4,"title":["A pilot study to troubleshoot quality control metrics when assessing circulating miRNA expression data reproducibility across study sites"],"prefix":"10.1177","volume":"33","author":[{"given":"Jennifer B.","family":"Permuth","sequence":"first","affiliation":[{"name":"Department of Cancer Epidemiology, H. Lee Moffitt Cancer Center and Research Institute, Tampa, FL, USA"},{"name":"Department of Gastrointestinal Oncology, H. Lee Moffitt Cancer Center and Research Institute, Tampa, FL, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Tania","family":"Mesa","sequence":"additional","affiliation":[{"name":"Molecular Genomics Core Facility, H. Lee Moffitt Cancer Center and Research Institute, Tampa, FL, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Sion L.","family":"Williams","sequence":"additional","affiliation":[{"name":"Oncogenomics Shared Resource, Sylvester Comprehensive Cancer Center, Miami, FL, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yoslayma","family":"Cardentey","sequence":"additional","affiliation":[{"name":"Oncogenomics Shared Resource, Sylvester Comprehensive Cancer Center, Miami, FL, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Dongyu","family":"Zhang","sequence":"additional","affiliation":[{"name":"Department of Cancer Epidemiology, University of Florida, Gainesville, FL, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Erica A.","family":"Pawlak","sequence":"additional","affiliation":[{"name":"GeoMx DSP, Nanostring Technologies, Seattle, WA, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jiannong","family":"Li","sequence":"additional","affiliation":[{"name":"Department of Biostatistics and Bioinformatics, H. Lee Moffitt Cancer Center and Research Institute, Tampa, FL, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Miles E.","family":"Cameron","sequence":"additional","affiliation":[{"name":"College of Medicine, University of Florida, Gainesville, FL, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Karla N.","family":"Ali","sequence":"additional","affiliation":[{"name":"Department of Cancer Epidemiology, H. Lee Moffitt Cancer Center and Research Institute, Tampa, FL, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Daniel","family":"Jeong","sequence":"additional","affiliation":[{"name":"Department of Cancer Epidemiology, H. Lee Moffitt Cancer Center and Research Institute, Tampa, FL, USA"},{"name":"Department of Diagnostic Imaging and Interventional Radiology, H. Lee Moffitt Cancer Tampa, FL, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Sean J.","family":"Yoder","sequence":"additional","affiliation":[{"name":"Molecular Genomics Core Facility, H. Lee Moffitt Cancer Center and Research Institute, Tampa, FL, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Dung-Tsa","family":"Chen","sequence":"additional","affiliation":[{"name":"Department of Biostatistics and Bioinformatics, H. Lee Moffitt Cancer Center and Research Institute, Tampa, FL, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jose G.","family":"Trevino","sequence":"additional","affiliation":[{"name":"Department of Surgery, University of Florida, Gainesville, FL, USA"},{"name":"Department of Surgery, Division of Surgical Oncology, Virginia Commonwealth University School of Medicine, Richmond, VA, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Nipun","family":"Merchant","sequence":"additional","affiliation":[{"name":"Department of Surgery, Sylvester Comprehensive Cancer Center, Miami, FL, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Mokenge","family":"Malafa","sequence":"additional","affiliation":[{"name":"Department of Gastrointestinal Oncology, H. Lee Moffitt Cancer Center and Research Institute, Tampa, FL, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"179","published-online":{"date-parts":[[2022,11,1]]},"reference":[{"key":"bibr1-CBM-210255","unstructured":"American Cancer Society. Cancer Facts and Figures 2021. Atlanta: American Cancer Society, 2021."},{"key":"bibr2-CBM-210255","doi-asserted-by":"crossref","first-page":"2513","DOI":"10.1158\/1055-9965.EPI-20-0161","volume":"29","author":"Liu Y.","year":"2020","journal-title":"Cancer Epidemiology, Biomarkers & Prevention: a Publication of the American Association for Cancer Research, Cosponsored by the American Society of Preventive Oncology"},{"key":"bibr3-CBM-210255","doi-asserted-by":"publisher","DOI":"10.1261\/rna.642907"},{"key":"bibr4-CBM-210255","doi-asserted-by":"publisher","DOI":"10.4161\/cc.7.16.6453"},{"key":"bibr5-CBM-210255","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.0804549105"},{"key":"bibr6-CBM-210255","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0116869"},{"key":"bibr7-CBM-210255","doi-asserted-by":"publisher","DOI":"10.1158\/1940-6207.CAPR-15-0094"},{"key":"bibr8-CBM-210255","doi-asserted-by":"publisher","DOI":"10.1158\/1078-0432.CCR-12-0035"},{"key":"bibr9-CBM-210255","doi-asserted-by":"publisher","DOI":"10.1016\/j.surg.2012.11.016"},{"key":"bibr10-CBM-210255","author":"Li A.","year":"2013","journal-title":"Clin Cancer Res"},{"key":"bibr11-CBM-210255","doi-asserted-by":"publisher","DOI":"10.4251\/wjgo.v6.i1.22"},{"key":"bibr12-CBM-210255","doi-asserted-by":"publisher","DOI":"10.1001\/jama.2013.284664"},{"key":"bibr13-CBM-210255","doi-asserted-by":"publisher","DOI":"10.1038\/nbt1385"},{"key":"bibr14-CBM-210255","doi-asserted-by":"publisher","DOI":"10.1158\/0008-5472.CAN-15-0262"},{"key":"bibr15-CBM-210255","doi-asserted-by":"publisher","DOI":"10.2217\/fon-2016-0045"},{"key":"bibr16-CBM-210255","doi-asserted-by":"publisher","DOI":"10.1016\/j.ymeth.2012.09.015"},{"key":"bibr17-CBM-210255","doi-asserted-by":"publisher","DOI":"10.1158\/1940-6207.CAPR-11-0370"}],"container-title":["Cancer Biomarkers"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/journals.sagepub.com\/doi\/pdf\/10.3233\/CBM-210255","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/journals.sagepub.com\/doi\/full-xml\/10.3233\/CBM-210255","content-type":"application\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/journals.sagepub.com\/doi\/pdf\/10.3233\/CBM-210255","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,4,28]],"date-time":"2026-04-28T14:08:32Z","timestamp":1777385312000},"score":1,"resource":{"primary":{"URL":"https:\/\/journals.sagepub.com\/doi\/10.3233\/CBM-210255"}},"subtitle":[],"editor":[{"given":"Kazufumi","family":"Honda","sequence":"additional","affiliation":[],"role":[{"role":"editor","vocabulary":"crossref"}]}],"short-title":[],"issued":{"date-parts":[[2022,11]]},"references-count":17,"journal-issue":{"issue":"4","published-print":{"date-parts":[[2022,11]]}},"alternative-id":["10.3233\/CBM-210255"],"URL":"https:\/\/doi.org\/10.3233\/cbm-210255","relation":{},"ISSN":["1574-0153","1875-8592"],"issn-type":[{"value":"1574-0153","type":"print"},{"value":"1875-8592","type":"electronic"}],"subject":[],"published":{"date-parts":[[2022,11]]}}}