{"doi":"10.1101/2020.05.28.119131","title":"Integrated sample inactivation, amplification, and Cas13-based detection of SARS-CoV-2","abstract":"The COVID-19 pandemic has highlighted that new diagnostic technologies are essential for controlling disease transmission. Here, we develop SHINE (SHERLOCK and HUDSON Integration to Navigate Epidemics), a sensitive and specific integrated diagnostic tool that can detect SARS-CoV-2 RNA from unextracted samples. We combine the steps of SHERLOCK into a single-step reaction and optimize HUDSON to accelerate viral inactivation in nasopharyngeal swabs and saliva. SHINE's results can be visualized with an in-tube fluorescent readout - reducing contamination risk as amplification reaction tubes remain sealed - and interpreted by a companion smartphone application. We validate SHINE on 50 nasopharyngeal patient samples, demonstrating 90% sensitivity and 100% specificity compared to RT-PCR with a sample-to-answer time of 50 minutes. SHINE has the potential to be used outside of hospitals and clinical laboratories, greatly enhancing diagnostic capabilities.","journal":"bioRxiv (Cold Spring Harbor Laboratory)","year":2020,"id":118694,"datarank":0.0,"base_score":0.0,"endowment":0.0,"self_citation_contribution":0.0,"citation_network_contribution":0.0,"self_endowment_contribution":0.0,"citer_contribution":0.0,"corpus_percentile":null,"corpus_rank":null,"citation_count":47,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":0.9543,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2020-01-01","fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":35848,"name":"Catherine A. Freije","orcid":"0000-0002-1939-3102","position":1,"is_corresponding":false},{"id":226703,"name":"Alexandra C. Stanton","orcid":"0000-0001-8355-345X","position":2,"is_corresponding":false},{"id":108314,"name":"Chloe K. Boehm","orcid":"0000-0002-6136-3257","position":3,"is_corresponding":false},{"id":226704,"name":"Brittany A. Petros","orcid":"0000-0003-2110-7475","position":4,"is_corresponding":false},{"id":226705,"name":"Sameed M. Siddiqui","orcid":"0000-0002-0392-7085","position":5,"is_corresponding":false},{"id":226706,"name":"Bennett Shaw","orcid":"0000-0002-0180-6802","position":6,"is_corresponding":false},{"id":226707,"name":"Gordon Adams","orcid":"0000-0003-1940-9706","position":7,"is_corresponding":false},{"id":108315,"name":"Tinna-Sólveig F. Kosoko-Thoroddsen","orcid":"0000-0003-2053-9591","position":8,"is_corresponding":false},{"id":226708,"name":"Molly Kemball","orcid":"0000-0002-6085-9314","position":9,"is_corresponding":false},{"id":229503,"name":"Robin Gross","orcid":null,"position":10,"is_corresponding":false},{"id":229504,"name":"Loni Wronka","orcid":null,"position":11,"is_corresponding":false},{"id":226711,"name":"Katie Caviness","orcid":"0000-0002-9175-7230","position":12,"is_corresponding":false},{"id":226712,"name":"Lisa E. Hensley","orcid":"0000-0003-1188-4342","position":13,"is_corresponding":false},{"id":54103,"name":"Nicholas H. Bergman","orcid":null,"position":14,"is_corresponding":false},{"id":226713,"name":"Bronwyn MacInnis","orcid":"0000-0003-0082-968X","position":15,"is_corresponding":false},{"id":226714,"name":"Jacob E. Lemieux","orcid":"0000-0002-2758-4005","position":16,"is_corresponding":false},{"id":7155,"name":"Pardis C. Sabeti","orcid":"0000-0002-9843-1890","position":17,"is_corresponding":false},{"id":35849,"name":"Cameron Myhrvold","orcid":"0000-0002-8971-184X","position":18,"is_corresponding":false},{"id":226702,"name":"Jon Arizti-Sanz","orcid":"0000-0002-4092-9952","position":0,"is_corresponding":true}],"reference_count":33,"raw_metadata":null,"created_at":"2026-07-18T23:14:03.409507Z","pmid":"32511415","pmcid":null,"fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":null,"fair_a":null,"fair_i":null,"fair_r":null,"fair_zscore":null,"fair_rationale":null,"fair_model":null,"fair_agent_version":null,"fair_fulltext_source":null,"fair_has_llm":null,"fair_computed_at":null,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}