ReScan, a Multiplex Diagnostic Pipeline, Pans Human Sera for SARS-CoV-2 Antigens
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SciScore for 10.1101/2020.05.11.20092528: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
Institutional Review Board Statement not detected. Randomization not detected. Blinding not detected. Power Analysis not detected. Sex as a biological variable not detected. Table 2: Resources
Software and Algorithms Sentences Resources Oligos were synthesized as a single pool by Twist Biosciences, followed by PCR amplification, restriction enzyme digestion and cloning into a commercially available T7 vector as previously described13,14. VirScan Bioinformatics: Sequencing reads were aligned to a reference database comprising the full viral peptide library using the Bowtie2 aligner35. Bowtie2suggested: (Bowtie 2, RRID:SCR_016368)Results from OddPub: Thank you for sharing your code and data.
Results from Limitatio…SciScore for 10.1101/2020.05.11.20092528: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
Institutional Review Board Statement not detected. Randomization not detected. Blinding not detected. Power Analysis not detected. Sex as a biological variable not detected. Table 2: Resources
Software and Algorithms Sentences Resources Oligos were synthesized as a single pool by Twist Biosciences, followed by PCR amplification, restriction enzyme digestion and cloning into a commercially available T7 vector as previously described13,14. VirScan Bioinformatics: Sequencing reads were aligned to a reference database comprising the full viral peptide library using the Bowtie2 aligner35. Bowtie2suggested: (Bowtie 2, RRID:SCR_016368)Results from OddPub: Thank you for sharing your code and data.
Results from LimitationRecognizer: We detected the following sentences addressing limitations in the study:Our study has some limitations. To fully characterize the test performance characteristics of these 9 candidate antigens as the basis for a more specific, high-throughput clinical diagnostic assay, additional patient samples need to be analyzed. However, both the statistically significant enrichment of these antigens above pre-pandemic healthy controls by PhIP-Seq, and the rigorous comparison between staining on HCs and COVID-19 subjects to determine a positive signal on the ReScan microarrays are both supportive of these antigens being highly specific for SARS-CoV-2 exposure. The current IP strategy focuses only on IgG, but future work may center on IgM targets, given their role in the early humoral immune response. Finally, post-translational modifications and tertiary or quaternary conformational epitopes are not represented in the T7 phage display system used here15,34. The immediate focus of this study was to develop a blueprint for candidate antigens to include in confirmatory SARS-CoV-2 serologic assays and identify a panel of linear antigens with significant discriminatory power. Beyond their use for diagnostic purposes, the next and critical question is whether a patient’s antibody repertoire confers protective immunity. Because our assay characterizes patients’ antibodies to multiple SARS-CoV-2 antigens, it enables deeper phenotyping of the adaptive immune response that, in future studies, can be correlated with acute and long-term clinical outcomes.
Results from TrialIdentifier: No clinical trial numbers were referenced.
Results from Barzooka: We did not find any issues relating to the usage of bar graphs.
Results from JetFighter: We did not find any issues relating to colormaps.
Results from rtransparent:- Thank you for including a conflict of interest statement. Authors are encouraged to include this statement when submitting to a journal.
- Thank you for including a funding statement. Authors are encouraged to include this statement when submitting to a journal.
- No protocol registration statement was detected.
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