{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,19]],"date-time":"2026-08-19T19:02:25Z","timestamp":1787166145596,"version":"build-2736575974"},"update-to":[{"DOI":"10.12688\/f1000research.103533.1","type":"new_version","label":"New version","source":"publisher","updated":{"date-parts":[[2022,9,30]],"date-time":"2022-09-30T00:00:00Z","timestamp":1664496000000}}],"reference-count":9,"publisher":"F1000 Research Ltd","license":[{"start":{"date-parts":[[2022,9,30]],"date-time":"2022-09-30T00:00:00Z","timestamp":1664496000000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Consejer\u00eda de Econom\u00eda, Conocimiento, Empresas y Universidad de la Junta de Andaluc\u00eda","award":["CV20-76497_COVID)"],"award-info":[{"award-number":["CV20-76497_COVID)"]}]},{"name":"Fundaci\u00f3n Fuerte"},{"DOI":"10.13039\/501100004587","name":"Instituto de Salud Carlos III","doi-asserted-by":"crossref","award":["REDISSEC-COV20\/00459"],"award-info":[{"award-number":["REDISSEC-COV20\/00459"]}],"id":[{"id":"10.13039\/501100004587","id-type":"DOI","asserted-by":"crossref"}]}],"content-domain":{"domain":["f1000research.com"],"crossmark-restriction":false},"short-container-title":["F1000Res"],"abstract":"<ns3:p>This\u00a0paper describes a\u00a0laboratory protocol to perform the\u00a0NanoString\u00a0nCounter\u00a0Gene Expression Assay from nasopharyngeal swab\u00a0samples.\u00a0<\/ns3:p>\n                  <ns3:p>It is urgently necessary to\u00a0identify\u00a0factors related\u00a0to\u00a0severe symptoms of respiratory infectious diseases,\u00a0such as\u00a0COVID-19,\u00a0in order\u00a0to\u00a0assess the possibility of\u00a0establishing\u00a0preventive or\u00a0preliminary\u00a0therapeutic measures\u00a0and to plan\u00a0the services to be provided\u00a0on\u00a0hospital admission.\u00a0At present,\u00a0the samples recommended for microbiological diagnosis are those\u00a0taken\u00a0from\u00a0the upper\u00a0and\/or the lower\u00a0respiratory tract.\u00a0<\/ns3:p>\n                  <ns3:p>The\u00a0NanoString\u00a0nCounter\u00a0Gene Expression Assay is a method\u00a0based\u00a0on\u00a0the\u00a0direct\u00a0digital\u00a0detection of mRNA molecules\u00a0by means of\u00a0target-specific, colour-coded probe pairs, without\u00a0the need\u00a0for\u00a0mRNA conversion to cDNA by reverse transcription or the amplification of the resulting cDNA by\u00a0PCR. This platform includes\u00a0advanced analysis tools that reduce the need for bioinformatics support\u00a0and also\u00a0offers\u00a0reliable sensitivity, reproducibility, technical\u00a0robustness\u00a0and utility for clinical application, even in\u00a0RNA\u00a0samples of low\u00a0RNA\u00a0quality or concentration,\u00a0such as paraffin-embedded samples.\u00a0Although the protocols for the analysis of blood or formalin-fixed paraffin-embedded samples are\u00a0provided\u00a0by the manufacturer,\u00a0no corresponding\u00a0protocol for the analysis of nasopharyngeal swab samples has\u00a0yet\u00a0been\u00a0established.\u00a0Therefore,\u00a0the approach we describe could be adopted to\u00a0determine\u00a0the expression of target genes in\u00a0samples obtained from\u00a0nasopharyngeal swabs\u00a0using\u00a0the\u00a0nCOUNTER\u00a0technology.<\/ns3:p>","DOI":"10.12688\/f1000research.103533.2","type":"journal-article","created":{"date-parts":[[2022,9,30]],"date-time":"2022-09-30T10:41:52Z","timestamp":1664534512000},"page":"133","update-policy":"https:\/\/doi.org\/10.12688\/f1000research.crossmark-policy","source":"Crossref","is-referenced-by-count":3,"title":["Laboratory protocol for the digital multiplexed gene expression analysis of nasopharyngeal swab samples using the NanoString nCounter system"],"prefix":"10.12688","volume":"11","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-3759-4044","authenticated-orcid":false,"given":"Marilina","family":"Garc\u00eda Aranda","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Inmaculada","family":"L\u00f3pez-Rodr\u00edguez","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Susana","family":"Garc\u00eda-Guti\u00e9rrez","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Maria","family":"Padilla-Ruiz","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Vanessa","family":"de Luque","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Maria Luisa","family":"Hortas","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Tatiana","family":"Diaz","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Martina","family":"\u00c1lvarez","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Isabel","family":"Barragan-Mallofret","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Maximino","family":"Redondo","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"name":"Research Network on Health Services in Chronic Diseases (Red de Investigaci\u00f3n en Servicios Sanitarios y Enfermedades Cr\u00f3nicas, REDISSEC)","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"2560","published-online":{"date-parts":[[2022,9,30]]},"reference":[{"key":"ref1","article-title":"Documento t\u00e9cnico: toma y transporte de muestras para diagn\u00f3stico por PCR de SARS-CoV-2 (technical document: Collection and transport of samples for PCR diagnosis of SARS-CoV-2). 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Sigdel, Division of MultiOrgan Transplantation, Department of Surgery, University of California San Francisco, San Francisco, CA, USA, 28 Oct 2022, version 2, indexed","URL":"https:\/\/f1000research.com\/articles\/11-133\/v2#referee-response-152138","order":1,"name":"referee-response-152138","label":"Referee Report","group":{"name":"article-reports","label":"Article Reports"}},{"value":"This research was supported by grants from Instituto de Salud Carlos III through the project REDISSEC COV20\/0059 awarded to MR; Consejer\u00eda de Econom\u00eda, Conocimiento, Empresas y Universidad de la Junta de Andaluc\u00eda  through the projects CV20-7697_COVID to MR and CV20-62050_COVID to IB, as well as by donations from Fundaci\u00f3n Fuerte (Marbella, Spain) and Ms Isabel Mar\u00eda Luque Bard\u00f3n to the Research and Innovation Unit at Hospital Costa del Sol. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.","order":2,"name":"grant-information","label":"Grant Information"},{"value":"This is an open access article distributed under the terms of the Creative Commons Attribution Licence, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.","order":0,"name":"copyright-info","label":"Copyright"}]}}