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Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2
Nature Biotechnology, 2019 QIIME 2 development was primarily funded by NSF Awards 1565100 to J.G.C. and 1565057 to R.K. Partial support was also provided by the following: grants NIH U54CA143925 (J.G.C. and T.P.) and U54MD012388 (J.G.C. and T.P.); grants from the Alfred P.
Evan Bolyen +111 more
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phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data
PLoS ONE, 2013 Background The analysis of microbial communities through DNA sequencing brings many challenges: the integration of different types of data with methods from ecology, genetics, phylogenetics, multivariate statistics, visualization and testing.
Paul J. McMurdie, S. Holmes
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Gut microbiome modulates response to anti–PD-1 immunotherapy in melanoma patients
Science, 2017 Good bacteria help fight cancer Resident gut bacteria can affect patient responses to cancer immunotherapy (see the Perspective by Jobin). Routy et al. show that antibiotic consumption is associated with poor response to immunotherapeutic PD-1 blockade ...
V. Gopalakrishnan +69 more
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Diet rapidly and reproducibly alters the human gut microbiome
Nature, 2013 Long-term dietary intake influences the structure and activity of the trillions of microorganisms residing in the human gut, but it remains unclear how rapidly and reproducibly the human gut microbiome responds to short-term macronutrient change. Here we
Lawrence A. David +12 more
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Emerging Topics in Life Sciences, 2017 The human microbiome is receiving a great deal of attention as its role in health and disease becomes ever more apparent. The oral microbiome, perhaps due to the ease with which we can obtain samples, is arguably the most well-studied human microbiome to date.
Shaw, LP, Smith, AM, Roberts, AP
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Indian Journal of Microbiology, 2010 The sequencing of the human genome has driven the study of human biology in a significant way and enabled the genome-wide study to elucidate the molecular basis of complex human diseases. Recently, the role of microbiota on human physiology and health has received much attention.
J, Rajendhran, P, Gunasekaran
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BioTechniques, 2018 To what extent can your microbiome define you and how can it be altered to optimize your health?
Alfie Gleeson, Abigail Sawyer
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Emerging Topics in Life Sciences, 2017 Human microbiomes have received increasing attention over the last 10 years, leading to a pervasiveness of hypotheses relating dysbiosis to health and disease. The respiratory tract has received much less attention in this respect than that of, for example, the human gut. Nevertheless, progress has been made in elucidating the immunological, ecological
David W, Cleary, Stuart C, Clarke
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Nature Reviews Microbiology, 2011 The skin is the human body's largest organ, colonized by a diverse milieu of microorganisms, most of which are harmless or even beneficial to their host. Colonization is driven by the ecology of the skin surface, which is highly variable depending on topographical location, endogenous host factors and exogenous environmental factors.
Elizabeth A, Grice, Julia A, Segre
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