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specificity: an R package for analysis of feature specificity to environmental and higher dimensional variables, applied to microbiome species data.
- Published in:
- Environmental Microbiome, 2022, v. 17, n. 1, p. 1, doi. 10.1186/s40793-022-00426-0
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- Publication type:
- Article
Normalization and microbial differential abundance strategies depend upon data characteristics.
- Published in:
- Microbiome, 2017, v. 5, p. 1, doi. 10.1186/s40168-017-0237-y
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- Publication type:
- Article
Integrating biological knowledge for mechanistic inference in the host-associated microbiome.
- Published in:
- Frontiers in Microbiology, 2024, p. 01, doi. 10.3389/fmicb.2024.1351678
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- Publication type:
- Article
The Cladistic Basis for the Phylogenetic Diversity (PD) Measure Links Evolutionary Features to Environmental Gradients and Supports Broad Applications of Microbial Ecology's "Phylogenetic Beta Diversity" Framework.
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- International Journal of Molecular Sciences, 2009, v. 10, n. 11, p. 4723, doi. 10.3390/ijms10114723
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- Publication type:
- Article
Disruption of Genes Encoding Putative Zwitterionic Capsular Polysaccharides of Diverse Intestinal Bacteroides Reduces the Induction of Host Anti-Inflammatory Factors.
- Published in:
- Microbial Ecology, 2023, v. 85, n. 4, p. 1620, doi. 10.1007/s00248-022-02037-1
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- Publication type:
- Article
Polymorphism, Recombination and Alternative Unscrambling in the DNA Polymerase & Gene of the Ciliate Stylonychia lemnae (Alveolata; class Spirotrichea).
- Published in:
- Genetics, 2003, v. 165, n. 4, p. 1761, doi. 10.1093/genetics/165.4.1761
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- Publication type:
- Article
Ribosomal RNA diversity predicts genome diversity in gut bacteria and their relatives.
- Published in:
- Nucleic Acids Research, 2010, v. 38, n. 12, p. 3869, doi. 10.1093/nar/gkq066
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- Publication type:
- Article
Short pyrosequencing reads suffice for accurate microbial community analysis.
- Published in:
- Nucleic Acids Research, 2007, v. 35, n. 18, p. e120, doi. 10.1093/nar/gkm541
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- Publication type:
- Article
UniFrac: an effective distance metric for microbial community comparison.
- Published in:
- ISME Journal: Multidisciplinary Journal of Microbial Ecology, 2011, v. 5, n. 2, p. 169, doi. 10.1038/ismej.2010.133
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- Publication type:
- Article
Soil bacterial and fungal communities across a pH gradient in an arable soil.
- Published in:
- ISME Journal: Multidisciplinary Journal of Microbial Ecology, 2010, v. 4, n. 10, p. 1340, doi. 10.1038/ismej.2010.58
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- Publication type:
- Article
Fast UniFrac: facilitating high-throughput phylogenetic analyses of microbial communities including analysis of pyrosequencing and PhyloChip data.
- Published in:
- ISME Journal: Multidisciplinary Journal of Microbial Ecology, 2010, v. 4, n. 1, p. 17, doi. 10.1038/ismej.2009.97
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- Publication type:
- Article
Microbial community resemblance methods differ in their ability to detect biologically relevant patterns.
- Published in:
- Nature Methods, 2010, v. 7, n. 10, p. 813, doi. 10.1038/nmeth.1499
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- Publication type:
- Article
QIIME allows analysis of high-throughput community sequencing data.
- Published in:
- 2010
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- Publication type:
- Letter
Fecal Bacterial Communities in treated HIV infected individuals on two antiretroviral regimens.
- Published in:
- Scientific Reports, 2017, p. 43741, doi. 10.1038/srep43741
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- Publication type:
- Article
Environmental and ecological factors that shape the gut bacterial communities of fish: a meta-analysis.
- Published in:
- Molecular Ecology, 2012, v. 21, n. 13, p. 3363, doi. 10.1111/j.1365-294X.2012.05552.x
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- Publication type:
- Article
Intestinal Parasites Infections among HIV Infected Children Under Antiretrovirals Treatment in Yaounde, Cameroon.
- Published in:
- 2020
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- Publication type:
- journal article
Microbiome, Metabolism, and Immunoregulation of Asthma: An American Thoracic Society and National Institute of Allergy and Infectious Diseases Workshop Report.
- Published in:
- American Journal of Respiratory Cell & Molecular Biology, 2022, v. 67, n. 2, p. 155, doi. 10.1165/rcmb.2022-0216ST
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- Publication type:
- Article
The unifrac significance test is sensitive to tree topology.
- Published in:
- BMC Bioinformatics, 2015, v. 16, n. 1, p. 1, doi. 10.1186/s12859-015-0640-y
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- Publication type:
- Article
The unifrac significance test is sensitive to tree topology
- Published in:
- BMC Bioinformatics, 2015, v. 16, n. 1, p. 211, doi. 10.1186/s12859-015-0640-y
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- Publication type:
- Article
UniFrac -- An online tool for comparing microbial community diversity in a phylogenetic context.
- Published in:
- BMC Bioinformatics, 2006, v. 7, p. 1, doi. 10.1186/1471-2105-7-371
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- Publication type:
- Article
Gut microbiota from high-risk men who have sex with men drive immune activation in gnotobiotic mice and in vitro HIV infection.
- Published in:
- PLoS Pathogens, 2019, v. 15, n. 4, p. 1, doi. 10.1371/journal.ppat.1007611
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- Publication type:
- Article
Differential effects of antiretroviral treatment on immunity and gut microbiome composition in people living with HIV in rural versus urban Zimbabwe.
- Published in:
- Microbiome, 2024, v. 12, n. 1, p. 1, doi. 10.1186/s40168-023-01718-4
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- Publication type:
- Article
VOLARE: visual analysis of disease-associated microbiome-immune system interplay.
- Published in:
- BMC Bioinformatics, 2019, v. 20, n. 1, p. N.PAG, doi. 10.1186/s12859-019-3021-0
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- Publication type:
- Article
The Macaque Gut Microbiome in Health, Lentiviral Infection, and Chronic Enterocolitis.
- Published in:
- PLoS Pathogens, 2008, v. 4, n. 2, p. 0001, doi. 10.1371/journal.ppat.0040020
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- Publication type:
- Article
Global patterns in the biogeography of bacterial taxa.
- Published in:
- Environmental Microbiology, 2011, v. 13, n. 1, p. 135, doi. 10.1111/j.1462-2920.2010.02315.x
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- Publication type:
- Article
Widespread colonization of the lung by Tropheryma whipplei in HIV infection.
- Published in:
- 2013
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- Publication type:
- journal article
Widespread Colonization of the Lung by Tropheryma whipplei in HIV Infection.
- Published in:
- American Journal of Respiratory & Critical Care Medicine, 2013, v. 187, n. 10, p. 1110, doi. 10.1164/rccm.201211-2145oc
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- Publication type:
- Article
Dietary fat promotes antibiotic-induced Clostridioides difficile mortality in mice.
- Published in:
- NPJ Biofilms & Microbiomes, 2022, v. 8, n. 1, p. 1, doi. 10.1038/s41522-022-00276-1
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- Publication type:
- Article
Alteration of the gut fecal microbiome in children living with HIV on antiretroviral therapy in Yaounde, Cameroon.
- Published in:
- Scientific Reports, 2021, v. 11, n. 1, p. 1, doi. 10.1038/s41598-021-87368-8
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- Publication type:
- Article
The Impact of a Consortium of Fermented Milk Strains on the Gut Microbiome of Gnotobiotic Mice and Monozygotic Twins.
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- Science Translational Medicine, 2011, v. 3, n. 106, p. 1, doi. 10.1126/scitranslmed.3002701
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- Publication type:
- Article
Worlds within worlds: evolution of the vertebrate gut microbiota.
- Published in:
- Nature Reviews Microbiology, 2008, v. 6, n. 10, p. 776, doi. 10.1038/nrmicro1978
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- Publication type:
- Article
Diversity, stability and resilience of the human gut microbiota.
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- Nature, 2012, v. 489, n. 7415, p. 220, doi. 10.1038/nature11550
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- Publication type:
- Article
Human gut microbiome viewed across age and geography.
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- Nature, 2012, v. 486, n. 7402, p. 222, doi. 10.1038/nature11053
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- Publication type:
- Article
Gut microbiota phenotypes of obesity.
- Published in:
- NPJ Biofilms & Microbiomes, 2019, v. 5, n. 1, p. N.PAG, doi. 10.1038/s41522-019-0091-8
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- Publication type:
- Article
Circulating CD8<sup>+</sup> mucosal‐associated invariant T cells correlate with improved treatment responses and overall survival in anti‐PD‐1‐treated melanoma patients.
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- Clinical & Translational Immunology, 2022, v. 11, n. 1, p. 1, doi. 10.1002/cti2.1367
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- Publication type:
- Article
An exploration of Prevotella-rich microbiomes in HIV and men who have sex with men.
- Published in:
- Microbiome, 2018, v. 6, n. 1, p. N.PAG, doi. 10.1186/s40168-018-0580-7
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- Publication type:
- Article
Pre-pregnancy weight, gestational weight gain, and the gut microbiota of mothers and their infants.
- Published in:
- Microbiome, 2017, v. 5, p. 1, doi. 10.1186/s40168-017-0332-0
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- Publication type:
- Article
SCNIC: Sparse correlation network investigation for compositional data.
- Published in:
- Molecular Ecology Resources, 2023, v. 23, n. 1, p. 312, doi. 10.1111/1755-0998.13704
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- Publication type:
- Article
Multiomic Predictors of Short-Term Weight Loss and Clinical Outcomes During a Behavioral-Based Weight Loss Intervention.
- Published in:
- 2021
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- Publication type:
- journal article
Correction to: An exploration of Prevotella-rich microbiomes in HIV and men who have sex with men.
- Published in:
- 2020
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- Publication type:
- Correction Notice
Gut microbiome of mothers delivering prematurely shows reduced diversity and lower relative abundance of Bifidobacterium and Streptococcus.
- Published in:
- PLoS ONE, 2017, v. 12, n. 10, p. 1, doi. 10.1371/journal.pone.0184336
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- Publication type:
- Article
CANTARE: finding and visualizing network-based multi-omic predictive models.
- Published in:
- BMC Bioinformatics, 2021, v. 22, n. 1, p. 1, doi. 10.1186/s12859-021-04016-8
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- Publication type:
- Article