Results 51 to 60 of about 99,976 (194)
Variable selection for sparse Dirichlet-multinomial regression with an application to microbiome data analysis [PDF]
Annals of Applied Statistics 2013, Vol. 7, No. 1, 418-442, 2013 With the development of next generation sequencing technology, researchers have now been able to study the microbiome composition using direct sequencing, whose output are bacterial taxa counts for each microbiome sample. One goal of microbiome study is to associate the microbiome composition with environmental covariates.
arxiv +1 more source
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
Cleary, David W., Clarke, Stuart C.
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Genome Biology, 2011 The first detailed temporal study of the human microbiome shows that individual body habitats exhibit surprising variation over time yet maintain distinguishable community structures.
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The sponge microbiome project [PDF]
GigaScience, 2017 Marine sponges (phylum Porifera) are a diverse, phylogenetically deep-branching clade known for forming intimate partnerships with complex communities of microorganisms. To date, 16S rRNA gene sequencing studies have largely utilised different extraction and amplification methodologies to target the microbial communities of a limited number of sponge ...
Maria V. Marra +40 more
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Perinatal factors affect the gut microbiota up to four years after birth
Nature Communications, 2019 Early life microbiome is affected by factors such as mode of delivery, gestational age at birth and feeding regime. Here, the authors show that gestational age at birth still imprints on the microbiome at four years of age, suggesting a link between ...
Fiona Fouhy +9 more
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Cell Death and Disease, 2021 Rewiring of host cytokine networks is a key feature of inflammatory bowel diseases (IBD) such as Crohn’s disease (CD). Th1-type cytokines—IFN-γ and TNF-α—occupy critical nodes within these networks and both are associated with disruption of gut ...
Jerzy A. Woznicki +18 more
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LinDA: linear models for differential abundance analysis of microbiome compositional data [PDF]
arXiv, 2021 Differential abundance analysis is at the core of statistical analysis of microbiome data. The compositional nature of microbiome sequencing data makes false positive control challenging. Here, we show that the compositional effects can be addressed by a simple, yet highly flexible and scalable, approach.
arxiv
Canadian Medical Association Journal, 2015 The human microbiome (glossary in Appendix 1, available at [www.cmaj.ca/lookup/suppl/doi:10.1503/cmaj.141072/-/DC1][1]) comprises hundreds of previously known and newly discovered microbial species living in distinct communities adapted to specific anatomic sites.[1][2] In healthy adults ...
Bryan Coburn, David S. Guttman
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Microbiome, 2023 Background Typically, animal models studying gastrointestinal microbiotas compromised in early life have employed either germ-free animals or mice treated with a cocktail of antibiotics. Such studies intend to mimic scenarios of infants born by caesarean
Emily C. Hoedt +9 more
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Rebooting the microbiome [PDF]
Gut Microbes, 2016 Using a murine Salmonella model of colitis, we recently reported that mice receiving a community of defined gut microbiota (MET-1) lost less weight, had reduced systemic inflammation and splenic S. typhimurium infection, and decreased neutrophil infiltration in the cecum, compared to vehicle controls.
Elaine O. Petrof +8 more
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