Bioinformatic Analyses of Whole-Genome Sequence Data in a Public Health Laboratory
The ability to generate high-quality sequence data in a public health laboratory enables the identification of pathogenic strains, the determination of relatedness among outbreak strains, and the analysis of genetic information regarding virulence and antimicrobial-resistance genes. However, the ana...
| Main Authors: | , , , , |
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| Format: | Article |
| Language: | English |
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Centers for Disease Control and Prevention
2017-09-01
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| Series: | Emerging Infectious Diseases |
| Subjects: | |
| Online Access: | https://wwwnc.cdc.gov/eid/article/23/9/17-0416_article |
| _version_ | 1818416975951429632 |
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| author | Kelly F. Oakeson Jennifer Marie Wagner Michelle Mendenhall Andreas Rohrwasser Robyn Atkinson-Dunn |
| author_facet | Kelly F. Oakeson Jennifer Marie Wagner Michelle Mendenhall Andreas Rohrwasser Robyn Atkinson-Dunn |
| author_sort | Kelly F. Oakeson |
| collection | DOAJ |
| description | The ability to generate high-quality sequence data in a public health laboratory enables the identification of pathogenic strains, the determination of relatedness among outbreak strains, and the analysis of genetic information regarding virulence and antimicrobial-resistance genes. However, the analysis of whole-genome sequence data depends on bioinformatic analysis tools and processes. Many public health laboratories do not have the bioinformatic capabilities to analyze the data generated from sequencing and therefore are unable to take full advantage of the power of whole-genome sequencing. The goal of this perspective is to provide a guide for laboratories to understand the bioinformatic analyses that are needed to interpret whole-genome sequence data and how these in silico analyses can be implemented in a public health laboratory setting easily, affordably, and, in some cases, without the need for intensive computing resources and infrastructure. |
| first_indexed | 2024-12-14T11:59:26Z |
| format | Article |
| id | doaj.art-30e0f7d92059420e86a97b9186ac754c |
| institution | Directory Open Access Journal |
| issn | 1080-6040 1080-6059 |
| language | English |
| last_indexed | 2024-12-14T11:59:26Z |
| publishDate | 2017-09-01 |
| publisher | Centers for Disease Control and Prevention |
| record_format | Article |
| series | Emerging Infectious Diseases |
| spelling | doaj.art-30e0f7d92059420e86a97b9186ac754c2022-12-21T23:02:01ZengCenters for Disease Control and PreventionEmerging Infectious Diseases1080-60401080-60592017-09-012391441144510.3201/eid2309.170416Bioinformatic Analyses of Whole-Genome Sequence Data in a Public Health LaboratoryKelly F. OakesonJennifer Marie WagnerMichelle MendenhallAndreas RohrwasserRobyn Atkinson-DunnThe ability to generate high-quality sequence data in a public health laboratory enables the identification of pathogenic strains, the determination of relatedness among outbreak strains, and the analysis of genetic information regarding virulence and antimicrobial-resistance genes. However, the analysis of whole-genome sequence data depends on bioinformatic analysis tools and processes. Many public health laboratories do not have the bioinformatic capabilities to analyze the data generated from sequencing and therefore are unable to take full advantage of the power of whole-genome sequencing. The goal of this perspective is to provide a guide for laboratories to understand the bioinformatic analyses that are needed to interpret whole-genome sequence data and how these in silico analyses can be implemented in a public health laboratory setting easily, affordably, and, in some cases, without the need for intensive computing resources and infrastructure.https://wwwnc.cdc.gov/eid/article/23/9/17-0416_articlebioinformaticswhole-genome sequencingnext-generation sequencingpublic health laboratoryinfectious diseasesUtah |
| spellingShingle | Kelly F. Oakeson Jennifer Marie Wagner Michelle Mendenhall Andreas Rohrwasser Robyn Atkinson-Dunn Bioinformatic Analyses of Whole-Genome Sequence Data in a Public Health Laboratory Emerging Infectious Diseases bioinformatics whole-genome sequencing next-generation sequencing public health laboratory infectious diseases Utah |
| title | Bioinformatic Analyses of Whole-Genome Sequence Data in a Public Health Laboratory |
| title_full | Bioinformatic Analyses of Whole-Genome Sequence Data in a Public Health Laboratory |
| title_fullStr | Bioinformatic Analyses of Whole-Genome Sequence Data in a Public Health Laboratory |
| title_full_unstemmed | Bioinformatic Analyses of Whole-Genome Sequence Data in a Public Health Laboratory |
| title_short | Bioinformatic Analyses of Whole-Genome Sequence Data in a Public Health Laboratory |
| title_sort | bioinformatic analyses of whole genome sequence data in a public health laboratory |
| topic | bioinformatics whole-genome sequencing next-generation sequencing public health laboratory infectious diseases Utah |
| url | https://wwwnc.cdc.gov/eid/article/23/9/17-0416_article |
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