دورية أكاديمية
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Measuring the microbiome: Best practices for developing and benchmarking microbiomics methods.

التفاصيل البيبلوغرافية
العنوان: Measuring the microbiome: Best practices for developing and benchmarking microbiomics methods.
المؤلفون: Bokulich NA; Laboratory of Food Systems Biotechnology, Institute of Food, Nutrition, and Health, ETH Zurich, Switzerland., Ziemski M; Laboratory of Food Systems Biotechnology, Institute of Food, Nutrition, and Health, ETH Zurich, Switzerland., Robeson MS 2nd; University of Arkansas for Medical Sciences, Department of Biomedical Informatics, Little Rock, AR, USA., Kaehler BD; School of Science, University of New South Wales, Canberra, Australia.
المصدر: Computational and structural biotechnology journal [Comput Struct Biotechnol J] 2020 Dec 03; Vol. 18, pp. 4048-4062. Date of Electronic Publication: 2020 Dec 03 (Print Publication: 2020).
نوع المنشور: Journal Article; Review
اللغة: English
بيانات الدورية: Publisher: Elsevier B.V. on behalf of Research Network of Computational and Structural Biotechnology Country of Publication: Netherlands NLM ID: 101585369 Publication Model: eCollection Cited Medium: Print ISSN: 2001-0370 (Print) Linking ISSN: 20010370 NLM ISO Abbreviation: Comput Struct Biotechnol J Subsets: PubMed not MEDLINE
أسماء مطبوعة: Publication: Amsterdam : Elsevier B.V. on behalf of Research Network of Computational and Structural Biotechnology
Original Publication: Gothenburg, Sweden : Research Network of Computational and Structural Biotechnology
مستخلص: Microbiomes are integral components of diverse ecosystems, and increasingly recognized for their roles in the health of humans, animals, plants, and other hosts. Given their complexity (both in composition and function), the effective study of microbiomes (microbiomics) relies on the development, optimization, and validation of computational methods for analyzing microbial datasets, such as from marker-gene (e.g., 16S rRNA gene) and metagenome data. This review describes best practices for benchmarking and implementing computational methods (and software) for studying microbiomes, with particular focus on unique characteristics of microbiomes and microbiomics data that should be taken into account when designing and testing microbiomics methods.
Competing Interests: The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper.
(© 2020 The Author(s).)
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فهرسة مساهمة: Keywords: Amplicon sequencing; Benchmarking; Best practices; Marker-gene sequencing; Metagenomics; Microbiome; Software development
تواريخ الأحداث: Date Created: 20201228 Latest Revision: 20231110
رمز التحديث: 20240628
مُعرف محوري في PubMed: PMC7744638
DOI: 10.1016/j.csbj.2020.11.049
PMID: 33363701
قاعدة البيانات: MEDLINE
الوصف
تدمد:2001-0370
DOI:10.1016/j.csbj.2020.11.049