A Sequence Homology and Bioinformatic Approach Can Predict Candidate Targets for Immune Responses to SARS-CoV-2
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SciScore for 10.1101/2020.02.12.946087: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
NIH rigor criteria are not applicable to paper type.Table 2: Resources
Software and Algorithms Sentences Resources Remaining sequences were aligned using the MUSCLE algorithm in MUSCLEsuggested: (MUSCLE, RRID:SCR_011812)ViPR. ViPRsuggested: (vipR, RRID:SCR_010685)Determination of 2019-nCoV sequence conservation: Each Wuhan-Hu-1 (MN908947) protein sequence was compared against the consensus protein sequences from SARS-CoV and MERS-CoV and the protein sequences from closest bat relative (bat-SL-CoVZXC21) using the BLAST algorithm (ViPR; https://www.viprbrc.org/brc/blast.spg?method=ShowCleanInputPage&decorator=corona) to compute the pairwise identity between Wuhan-Hu-1 proteins and their comparison target. B…SciScore for 10.1101/2020.02.12.946087: (What is this?)
Please note, not all rigor criteria are appropriate for all manuscripts.
Table 1: Rigor
NIH rigor criteria are not applicable to paper type.Table 2: Resources
Software and Algorithms Sentences Resources Remaining sequences were aligned using the MUSCLE algorithm in MUSCLEsuggested: (MUSCLE, RRID:SCR_011812)ViPR. ViPRsuggested: (vipR, RRID:SCR_010685)Determination of 2019-nCoV sequence conservation: Each Wuhan-Hu-1 (MN908947) protein sequence was compared against the consensus protein sequences from SARS-CoV and MERS-CoV and the protein sequences from closest bat relative (bat-SL-CoVZXC21) using the BLAST algorithm (ViPR; https://www.viprbrc.org/brc/blast.spg?method=ShowCleanInputPage&decorator=corona) to compute the pairwise identity between Wuhan-Hu-1 proteins and their comparison target. BLASTsuggested: (BLASTX, RRID:SCR_001653)Results from OddPub: We did not detect open data. We also did not detect open code. Researchers are encouraged to share open data when possible (see Nature blog).
Results from LimitationRecognizer: An explicit section about the limitations of the techniques employed in this study was not found. We encourage authors to address study limitations.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:- No conflict of interest statement was detected. If there are no conflicts, we encourage authors to explicit state so.
- 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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