The DOI matches its Crossref record; 6 of the 6 references it cites were found in a registry or an index.
FDA-ARGOS is a database with public quality-controlled reference genomes for diagnostic use and regulatory science
Open accessAbstract
FDA proactively invests in tools to support innovation of emerging technologies, such as infectious disease next generation sequencing (ID-NGS). Here, we introduce FDA-ARGOS quality-controlled reference genomes as a public database for diagnostic purposes and demonstrate its utility on the example of two use cases. We provide quality control metrics for the FDA-ARGOS genomic database resource and outline the need for genome quality gap filling in the public domain. In the first use case, we show more accurate microbial identification of Enterococcus avium from metagenomic samples with FDA-ARGOS reference genomes compared to non-curated GenBank genomes. In the second use case, we demonstrate the utility of FDA-ARGOS reference genomes for Ebola virus target sequence comparison as part of a composite validation strategy for ID-NGS diagnostic tests. The use of FDA-ARGOS as an in silico target sequence comparator tool combined with representative clinical testing could reduce the burden for completing ID-NGS clinical trials.
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Cites
Kraken: ultrafast metagenomic sequence classification using exact alignments
Wood, D. E., & Salzberg, S. L. (2014) · Genome Biology · doi:10.1186/gb-2014-15-3-r46 · Cited by 4,521
Actionable Diagnosis of Neuroleptospirosis by Next-Generation Sequencing
Wilson, M. R., Naccache, S. N., Samayoa, E., Biagtan, M., Bashir, H., Yu, G., Salamat, S. M., Somasekar, S., Federman, S., Miller, S., et al. (2014) · New England Journal of Medicine · doi:10.1056/nejmoa1401268 · Cited by 977
Snitkin, E. S., Zelazny, A. M., Thomas, P. J., Stock, F., Program, N. C. S., Henderson, D. K., Palmore, T. N., & Segre, J. A. (2012) · Science Translational Medicine · doi:10.1126/scitranslmed.3004129 · Cited by 863
Simner, P. J., Miller, S., & Carroll, K. C. (2018) · Clinical Infectious Diseases · doi:10.1093/cid/cix881 · Cited by 821
Goldberg, B., Sichtig, H., Geyer, C., Ledeboer, N., & Weinstock, G. M. (2015) · mBio · doi:10.1128/mbio.01888-15 · Cited by 360
Self-citationNaccache, S. N., Peggs, K. S., Mattes, F. M., Phadke, R., Garson, J. A., Grant, P., Samayoa, E., Federman, S., Miller, S., Lunn, M. P., et al. (2015) · Clinical Infectious Diseases · doi:10.1093/cid/ciu912 · Cited by 294
Cited by
Weiskopf, S. R., Rubenstein, M. A., Crozier, L. G., Gaichas, S., Griffis, R., Halofsky, J. E., Hyde, K. J. W., Morelli, T. L., Morisette, J. T., Muñoz, R. C., et al. (2020) · Science of The Total Environment · doi:10.1016/j.scitotenv.2020.137782 · Cited by 1,262
Molecular interaction and inhibition of SARS-CoV-2 binding to the ACE2 receptor
Yang, J., Petitjean, S. J. L., Koehler, M., Zhang, Q., Dumitru, A. C., Chen, W., Derclaye, S., Vincent, S. P., Soumillion, P., & Alsteens, D. (2020) · Nature Communications · doi:10.1038/s41467-020-18319-6 · Cited by 615
State of the field in multi-omics research: from computational needs to data mining and sharing
Krassowski, M., Das, V., Sahu, S. K., & Misra, B. B. (2020) · Frontiers in Genetics · doi:10.3389/fgene.2020.610798 · Cited by 351
Steinegger, M., & Salzberg, S. L. (2020) · Genome Biology · doi:10.1186/s13059-020-02023-1 · Cited by 246
A new global ice sheet reconstruction for the past 80 000 years
Gowan, E. J., Zhang, X., Khosravi, S., Rovere, A., Stocchi, P., Hughes, A. L. C., Gyllencreutz, R., Mangerud, J., Svendsen, J.-I., & Lohmann, G. (2021) · Nature Communications · doi:10.1038/s41467-021-21469-w · Cited by 237
Metadata
- Authors
- Sichtig, H., Minogue, T., Yan, Y., Stefan, C., Hall, A., Tallon, L., Sadzewicz, L., Nadendla, S., Klimke, W., Hatcher, E., Shumway, M., Aldea, D. L., Allen, J., Koehler, J., Slezak, T., Lovell, S., Schoepp, R., & Scherf, U.
- Venue
- Nature Communications
- Published
- 2019-07-25
- Volume
- 10
- Issue
- 1
- Pages
- 3313-3313
- ISSN
- 2041-1723 (ISSN-L)
- OpenAlex
- W2963839877
- Cited by
- 321
- References
- 6
- FWCI
- 17.40
- Type
- journal article
- Language
- en
- Open access
- gold
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- Sichtig, H., Minogue, T., Yan, Y., Stefan, C., Hall, A., Tallon, L., Sadzewicz, L., Nadendla, S., Klimke, W., Hatcher, E., Shumway, M., Aldea, D. L., Allen, J., Koehler, J., Slezak, T., Lovell, S., Schoepp, R., & Scherf, U. (2019). FDA-ARGOS is a database with public quality-controlled reference genomes for diagnostic use and regulatory science. Nature Communications. https://doi.org/10.1038/s41467-019-11306-6
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Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
