Evidence map›Paper›PMID 35130561›Full record

ArticleNature medicine2022

Multiplexed CRISPR-based microfluidic platform for clinical testing of respiratory viruses and identification of SARS-CoV-2 variants.

Nicole L Welch, Meilin Zhu, Catherine Hua, Juliane Weller, Marzieh Ezzaty Mirhashemi, Tien G Nguyen, Sreekar Mantena, Matthew R Bauer, Bennett M Shaw, Cheri M Ackerman and 40 more

Erratum issuedOpen access · hybridAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Nature medicine, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 123 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
123citing papers in PubMed, 1 pooled it
23.7field-weighted citation impact, top 1% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

123 citing papers in PubMed, 1 synthesis or guideline pooled it, 286 citations in OpenAlex.

  1. Pooled it
  2. Trial
  3. Trial
  4. Article
  5. Review
  6. Review
  7. Article
  8. Article
  9. Article
  10. Review
  11. Towards deployable CRISPR-based nucleic acid detection.Progress in biomedical engineering (Bristol, England) · 2026
    Review
  12. Article
  13. Article
  14. CRISPR Diagnostics, in Your Pocket.Journal of medical Internet research · 2026
    Article
  15. Article
  16. Review
  17. Article
  18. Droplet Digital CRISPR for Nucleic Acid Detection.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026
    Review
  19. Review
  20. Review

63 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

50 authors at 7 institutions in 3 countries.

Nicole L WelchBroad Institute of MIT and Harvard, Cambridge, MA, USA. nicole_welch@g.harvard.edu.ORCID http://orcid.org/0000-0002-1163-7002
Meilin ZhuBroad Institute of MIT and Harvard, Cambridge, MA, USA.ORCID http://orcid.org/0000-0003-1302-4020
Catherine HuaBroad Institute of MIT and Harvard, Cambridge, MA, USA.ORCID http://orcid.org/0000-0003-0455-5364
Juliane WellerBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Marzieh Ezzaty MirhashemiBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Tien G NguyenBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Sreekar MantenaBroad Institute of MIT and Harvard, Cambridge, MA, USA.ORCID http://orcid.org/0000-0002-8834-1461
Matthew R BauerBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Bennett M ShawBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Cheri M AckermanBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Sri Gowtham ThakkuBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Megan W TseBroad Institute of MIT and Harvard, Cambridge, MA, USA.ORCID http://orcid.org/0000-0002-4968-7072
Jared KeheBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Marie-Martine UweraBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Jacqueline S EversleyDivision of Infectious Diseases, Department of Medicine, Massachusetts General Hospital, Boston, MA, USA.
Derek A BielwaskiDivision of Infectious Diseases, Department of Medicine, Massachusetts General Hospital, Boston, MA, USA.
Graham McGrathDivision of Infectious Diseases, Department of Medicine, Massachusetts General Hospital, Boston, MA, USA.
Joseph BraidtDivision of Infectious Diseases, Department of Medicine, Massachusetts General Hospital, Boston, MA, USA.
Jeremy JohnsonBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Felecia CerratoBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Gage K MorenoBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Lydia A KrasilnikovaBroad Institute of MIT and Harvard, Cambridge, MA, USA.ORCID http://orcid.org/0000-0003-4163-706X
Brittany A PetrosBroad Institute of MIT and Harvard, Cambridge, MA, USA.ORCID http://orcid.org/0000-0003-2110-7475
Gabrielle L GionetBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Ewa KingState Health Laboratories, Rhode Island Department of Health, Providence, RI, USA.
Richard C HuardState Health Laboratories, Rhode Island Department of Health, Providence, RI, USA.
Samantha K JalbertDepartment of Systems Biology, Harvard Medical School, Boston, MA, USA.
Michael L ClearyDepartment of Systems Biology, Harvard Medical School, Boston, MA, USA.
Nicholas A FitzgeraldBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Stacey B GabrielBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Glen R GallagherMassachusetts Department of Public Health, Boston, MA, USA.ORCID http://orcid.org/0000-0001-6837-9473
Sandra C SmoleMassachusetts Department of Public Health, Boston, MA, USA.
Lawrence C MadoffMassachusetts Department of Public Health, Boston, MA, USA.ORCID http://orcid.org/0000-0003-2589-7777
Catherine M BrownMassachusetts Department of Public Health, Boston, MA, USA.
Matthew W KellerInfluenza Division, National Center for Immunization and Respiratory Diseases, Centers for Disease Control and Prevention, Atlanta, GA, USA.ORCID http://orcid.org/0000-0002-5850-1698
Malania M WilsonInfluenza Division, National Center for Immunization and Respiratory Diseases, Centers for Disease Control and Prevention, Atlanta, GA, USA.
Marie K KirbyInfluenza Division, National Center for Immunization and Respiratory Diseases, Centers for Disease Control and Prevention, Atlanta, GA, USA.ORCID http://orcid.org/0000-0003-0859-9604
John R BarnesInfluenza Division, National Center for Immunization and Respiratory Diseases, Centers for Disease Control and Prevention, Atlanta, GA, USA.
Daniel J ParkBroad Institute of MIT and Harvard, Cambridge, MA, USA.ORCID http://orcid.org/0000-0001-7226-7781
Katherine J SiddleBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Christian T HappiBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Deborah T HungBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Michael SpringerBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Bronwyn L MacInnisBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Jacob E LemieuxBroad Institute of MIT and Harvard, Cambridge, MA, USA.
Eric RosenbergDivision of Infectious Diseases, Department of Medicine, Massachusetts General Hospital, Boston, MA, USA.
John A BrandaDepartment of Pathology, Massachusetts General Hospital and Harvard Medical School, Boston, MA, USA.
Paul C BlaineyBroad Institute of MIT and Harvard, Cambridge, MA, USA.ORCID http://orcid.org/0000-0002-4889-8783
Pardis C SabetiBroad Institute of MIT and Harvard, Cambridge, MA, USA. pardis@broadinstitute.org.ORCID http://orcid.org/0000-0002-9843-1890
Cameron MyhrvoldDepartment of Molecular Biology, Princeton University, Princeton, NJ, USA. cmyhrvol@princeton.edu.ORCID http://orcid.org/0000-0002-8971-184X
Broad Institute · USCenters for Disease Control and Prevention · USHarvard University · USMassachusetts Department of Public Health · USMassachusetts General Hospital · USRhode Island Department of Health · USPrinceton University · US

Funding

Viral Genomics: evolution, spread, and host interactionsU19AI110818 · NIAID · BROAD INSTITUTE, INC. · PI NEAFSEY, DANIEL E · 2014 to 2024
$66.5M
Medical Scientist Training ProgramT32GM007753 · NIGMS · HARVARD UNIVERSITY (MEDICAL SCHOOL) · PI WALENSKY, LOREN DAVID · 1985 to 2021
$50.0M
West African Emerging Infectious Disease Research Center (WA-EIDRC)U01AI151812 · NIAID · SCRIPPS RESEARCH INSTITUTE, THE · PI ANDERSEN, KRISTIAN GRAUGAARD, GARRY, ROBERT F · 2020 to 2024
$13.2M
Howard Hughes Medical InstituteNIAID NIH HHS U01 AI151812NIAID NIH HHS U19 AI110818NIGMS NIH HHS T32 GM007753
6 · The paper itself

Abstract

The coronavirus disease 2019 (COVID-19) pandemic has demonstrated a clear need for high-throughput, multiplexed and sensitive assays for detecting severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) and other respiratory viruses and their emerging variants. Here, we present a cost-effective virus and variant detection platform, called microfluidic Combinatorial Arrayed Reactions for Multiplexed Evaluation of Nucleic acids (mCARMEN), which combines CRISPR-based diagnostics and microfluidics with a streamlined workflow for clinical use. We developed the mCARMEN respiratory virus panel to test for up to 21 viruses, including SARS-CoV-2, other coronaviruses and both influenza strains, and demonstrated its diagnostic-grade performance on 525 patient specimens in an academic setting and 166 specimens in a clinical setting. We further developed an mCARMEN panel to enable the identification of 6 SARS-CoV-2 variant lineages, including Delta and Omicron, and evaluated it on 2,088 patient specimens with near-perfect concordance to sequencing-based variant classification. Lastly, we implemented a combined Cas13 and Cas12 approach that enables quantitative measurement of SARS-CoV-2 and influenza A viral copies in samples. The mCARMEN platform enables high-throughput surveillance of multiple viruses and variants simultaneously, enabling rapid detection of SARS-CoV-2 variants.

Indexed as

COVID-19Influenza, HumanHumansMicrofluidicsSARS-CoV-2

Identifiers

PMID35130561
PMCPMC9117129
OpenAlexW4210752017

What OpenQuestion holds

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.