Accurate prediction of virus-host protein-protein interactions via a Siamese neural network using deep protein sequence embeddings
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SciScore for 10.1101/2022.05.31.494170: (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 This information is not included in PPT-Ohmnet, hence, we used BioGRID and IntAct as the two largest PPI databases to extract the experimental procedures, such as “pull down”, “two hybrid”, by which the interactions were originally discovered. BioGRIDsuggested: (BioGrid Australia, RRID:SCR_006334)To train deep learning models we retrieved the sequences of all proteins in our PPIs from the UniProt database. UniProtsuggested: (UniProtKB, RRID:SCR_004426)Collection of Human Receptor Proteins: To extract human receptor proteins, we first performed a search in GO for the term “receptor”. Human …SciScore for 10.1101/2022.05.31.494170: (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 This information is not included in PPT-Ohmnet, hence, we used BioGRID and IntAct as the two largest PPI databases to extract the experimental procedures, such as “pull down”, “two hybrid”, by which the interactions were originally discovered. BioGRIDsuggested: (BioGrid Australia, RRID:SCR_006334)To train deep learning models we retrieved the sequences of all proteins in our PPIs from the UniProt database. UniProtsuggested: (UniProtKB, RRID:SCR_004426)Collection of Human Receptor Proteins: To extract human receptor proteins, we first performed a search in GO for the term “receptor”. Human Receptor Proteinssuggested: NoneResults from OddPub: Thank you for sharing your code and data.
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:- Thank you for including a conflict of interest statement. Authors are encouraged to include this statement when submitting to a journal.
- No funding statement was detected.
- No protocol registration statement was detected.
Results from scite Reference Check: We found no unreliable references.
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