X. Morgan

发表

Dysfunction of the intestinal microbiome in inflammatory bowel disease and treatment

Timothy L. Tickle, Samir A. Shah, C. Huttenhower, 2012, Genome Biology.

Computational meta'omics for microbial community studies

Timothy L. Tickle, C. Huttenhower, N. Segata, 2013, Molecular systems biology.

Mapping DNA-protein interactions in large genomes by sequence tag analysis of genomic enrichment

Jonghwan Kim, Vishwanath R Iyer, Xochitl C Morgan, 2005, Nature Methods.

Meta'omic analytic techniques for studying the intestinal microbiome.

C. Huttenhower, X. Morgan, 2014, Gastroenterology.

PhyloPhlAn is a new method for improved phylogenetic and taxonomic placement of microbes

C. Huttenhower, N. Segata, D. Börnigen, 2013, Nature Communications.

Oral probiotics reduce halitosis in patients wearing orthodontic braces: a randomized, triple-blind, placebo-controlled trial

X. Morgan, M. Farella, G. Benic, 2019, Journal of breath research.

Experimental design and quantitative analysis of microbial community multiomics

C. Huttenhower, E. Franzosa, T. Vatanen, 2017, Genome Biology.

The treatment-naive microbiome in new-onset Crohn's disease.

Se Jin Song, M. Yassour, C. Huttenhower, 2014, Cell host & microbe.

Associations between host gene expression, the mucosal microbiome, and clinical outcome in the pelvic pouch of patients with inflammatory bowel disease

Timothy L. Tickle, C. Huttenhower, L. Waldron, 2015, Genome Biology.

Sequencing and beyond: integrating molecular 'omics' for microbial community profiling

C. Huttenhower, E. Franzosa, X. Morgan, 2015, Nature Reviews Microbiology.

Microbial biogeography of 1,000 geothermal springs in New Zealand

X. Morgan, S. Cary, I. McDonald, 2018, bioRxiv.

Relating the metatranscriptome and metagenome of the human gut

C. Huttenhower, N. Segata, L. Waldron, 2014, Proceedings of the National Academy of Sciences.

Urban Transit System Microbial Communities Differ by Surface Type and Interaction with Humans and the Environment

John D. Spengler, Curtis Huttenhower, Afrah Shafquat, 2016, mSystems.

Chapter 12: Human Microbiome Analysis

Curtis Huttenhower, Xochitl C. Morgan, C. Huttenhower, 2012, PLoS Comput. Biol..

Eukaryotic transcriptional regulation : from data mining to transcriptional profiling

X. Morgan, 2008 .

Extensive Unexplored Human Microbiome Diversity Revealed by Over 150,000 Genomes from Metagenomes Spanning Age, Geography, and Lifestyle

Edoardo Pasolli, P. Manghi, F. Beghini, 2019, Cell.

Mucosal‐associated invariant T cells and Vδ2+ γδ T cells in community acquired pneumonia: association of abundance in sputum with clinical severity and outcome

Matthew R. Schofield, D. Murdoch, X. Morgan, 2019, Clinical and experimental immunology.

Role of Innate-like Lymphocytes in the Pathogenesis of Community Acquired Pneumonia

Matthew R. Schofield, D. Murdoch, X. Morgan, 2018, bioRxiv.

Chthonomonas calidirosea gen. nov., sp. nov., an aerobic, pigmented, thermophilic micro-organism of a novel bacterial class, Chthonomonadetes classis nov., of the newly described phylum Armatimonadetes originally designated candidate division OP10.

X. Morgan, J. Ryan, M. Vyssotski, 2011, International journal of systematic and evolutionary microbiology.

Diverse hydrogen production and consumption pathways influence methane production in ruminants

X. Morgan, S. Koike, R. Mackie, 2019, The ISME Journal.

Two Novel Candidate Divisions Candidate Division OP10) and Definition of Phylum Armatimonadetes (Former Phylogenetic Delineation of the Novel

X. Morgan, P. Dunfield, C. Herbold, 2013 .

Phylogenetic Delineation of the Novel Phylum Armatimonadetes (Former Candidate Division OP10) and Definition of Two Novel Candidate Divisions

X. Morgan, P. Dunfield, C. Herbold, 2013, Applied and Environmental Microbiology.

Searching for a Consensus Among Inflammatory Bowel Disease Studies: A Systematic Meta-Analysis

X. Morgan, Lama Izzat Hasan Abdel-Rahman, 2022, Inflammatory bowel diseases.

Extensive Unexplored Human Microbiome Diversity Revealed by Over 150,000 Genomes from Metagenomes Spanning Age, Geography, and Lifestyle

Edoardo Pasolli, P. Manghi, F. Beghini, 2019, Cell.

Type I CRISPR-Cas provides robust immunity but incomplete attenuation of phage-induced cellular stress

X. Morgan, P. C. Fineran, Hannah G. Hampton, 2021, Nucleic acids research.

Microbial biogeography of 925 geothermal springs in New Zealand

X. Morgan, Charles K. Lee, S. Cary, 2018, Nature Communications.

Biogeography of the intestinal mucosal and lumenal microbiome in the rhesus macaque.

Timothy L. Tickle, Eric A. Franzosa, C. Huttenhower, 2015, Cell host & microbe.

Fluoride Depletes Acidogenic Taxa in Oral but Not Gut Microbial Communities in Mice

C. Huttenhower, E. Franzosa, W. Garrett, 2017, mSystems.

Alternative hydrogen uptake pathways suppress methane production in ruminants

X. Morgan, S. Koike, R. Mackie, 2018 .

Agricultural Origins of a Highly Persistent Lineage of Vancomycin-Resistant Enterococcus faecalis in New Zealand

X. Morgan, G. Cook, G. Carter, 2019, Applied and Environmental Microbiology.

Predicting combinatorial binding of transcription factors to regulatory elements in the human genome by association rule mining

Daniel P. Miranker, Vishwanath R. Iyer, Xochitl C. Morgan, 2007, BMC Bioinformatics.

Mucosal metabolites fuel the growth and virulence of E. coli linked to Crohn’s disease

C. Huttenhower, J. Satsangi, R. Yantiss, 2022, JCI insight.

High-sensitivity pattern discovery in large, paired multiomic datasets

Yo Sup Moon, C. Huttenhower, L. Waldron, 2021, bioRxiv.

Thermorudis pharmacophila sp. nov., a novel member of the class Thermomicrobia isolated from geothermal soil, and emended descriptions of Thermomicrobium roseum, Thermomicrobium carboxidum, Thermorudis peleae and Sphaerobacter thermophilus.

X. Morgan, E. Hanssen, I. McDonald, 2015, International journal of systematic and evolutionary microbiology.

Gut microbiome composition and function in experimental colitis during active disease and treatment-induced remission

Curtis Huttenhower, Nicola Segata, Timothy L. Tickle, 2014, The ISME Journal.

Sub-clinical detection of gut microbial biomarkers of obesity and type 2 diabetes

Timothy L. Tickle, M. Yassour, B. Birren, 2016, Genome Medicine.

Determining microbial products and identifying molecular targets in the human microbiome.

C. Huttenhower, X. Morgan, Afrah Shafquat, 2014, Cell metabolism.

Functional profiling of the gut microbiome in disease-associated inflammation

C. Huttenhower, E. Franzosa, R. Xavier, 2013, Genome Medicine.

Human microbiome structure and function

C. Huttenhower, E. Franzosa, R. Xavier, 2013 .

Biodiversity and functional genomics in the human microbiome.

Curtis Huttenhower, Nicola Segata, Xochitl C Morgan, 2013, Trends in genetics : TIG.

Eczema-protective probiotic alters infant gut microbiome functional capacity but not composition: sub-sample analysis from a RCT.

E. Mitchell, X. Morgan, J. Crane, 2019, Beneficial microbes.

bioBakery: a meta’omic analysis environment

Curtis Huttenhower, Levi Waldron, Nicola Segata, 2017, Bioinform..

Genetic evaluation of ESBL-producing Escherichia coli urinary isolates in Otago, New Zealand

X. Morgan, K. Dyet, A. Biswas, 2021, JAC-antimicrobial resistance.

Manipulating the microbiome alters regenerative outcomes in Xenopus laevis tadpoles via lipopolysaccharide signalling

X. Morgan, C. Beck, J. Ward, 2021, bioRxiv.

Complete Genome Sequences of Kinneretia sp. Strain XES5, Shinella sp. Strain XGS7, and Vogesella sp. Strain XCS3, Isolated from Xenopus laevis Skin

X. Morgan, R. Day, C. Beck, 2021, Microbiology resource announcements.

Identifying accurate metagenome and amplicon software via a meta-analysis of sequence to taxonomy benchmarking studies

Robert D. Finn, Paul P. Gardner, Xochitl C. Morgan, 2017, bioRxiv.

Complete genome sequence of the thermophilic Acidobacteria, Pyrinomonas methylaliphatogenes type strain K22T

C. Huttenhower, X. Morgan, P. Dunfield, 2015, Standards in Genomic Sciences.

Complete genome sequence of the thermophilic Acidobacteria , Pyrinomonas methylaliphatogenes type strain K 22 T

C. Huttenhower, X. Morgan, P. Dunfield, 2015 .

A reproducible approach to high-throughput biological data acquisition and integration

Levi Waldron, Daniela Börnigen, Curtis Huttenhower, 2015, PeerJ.

Electing a candidate: a speculative history of the bacterial phylum OP10.

X. Morgan, P. Dunfield, I. McDonald, 2012, Environmental microbiology.

The Chthonomonas calidirosea Genome Is Highly Conserved across Geographic Locations and Distinct Chemical and Microbial Environments in New Zealand's Taupō Volcanic Zone

C. Huttenhower, X. Morgan, P. Dunfield, 2016, Applied and Environmental Microbiology.

Genomic analysis of Chthonomonas calidirosea, the first sequenced isolate of the phylum Armatimonadetes

X. Morgan, P. Dunfield, I. McDonald, 2014, The ISME Journal.

Fatty Acids of Chthonomonas calidirosea, of a Novel Class Chthonomonadetes from a Recently Described Phylum Armatimonadetes

X. Morgan, M. Vyssotski, M. Stott, 2011, Lipids.

Pyrinomonas methylaliphatogenes gen. nov., sp. nov., a novel group 4 thermophilic member of the phylum Acidobacteria from geothermal soils.

X. Morgan, J. Ryan, J. S. Sinninghe Damsté, 2014, International journal of systematic and evolutionary microbiology.

Rectal swabs are a reliable method of assessing the colonic microbiome.

X. Morgan, F. Frizelle, R. Purcell, 2022, International journal of medical microbiology : IJMM.

Complete genome sequence of the thermophilic Acidobacteria, Pyrinomonas methylaliphatogenes type strain K22T

C. Huttenhower, X. Morgan, P. Dunfield, 2015, Standards in genomic sciences.

Invited Commentary: Improving the Accessibility of Human Microbiome Project Data Through Integration With R/Bioconductor.

Jocelyn C Griffith, Xochitl C Morgan, X. Morgan, 2019, American journal of epidemiology.

Gut microbiome composition and function in experimental colitis during active disease and treatment-induced remission

Timothy L. Tickle, C. Huttenhower, N. Segata, 2014, The ISME Journal.

Determining microbial products and identifying molecular targets in the human microbiome.

C. Huttenhower, X. Morgan, Afrah Shafquat, 2014, Cell metabolism.

X. Morgan, E. Hanssen, I. McDonald, 2015, International journal of systematic and evolutionary microbiology.

A Novel Fatty Acid, 12,17-Dimethyloctadecanoic Acid, from the Extremophile Thermogemmatispora sp. (Strain T81)

X. Morgan, M. Vyssotski, M. Stott, 2012, Lipids.

A genus in the bacterial phylum Aquificota appears to be endemic to Aotearoa-New Zealand

Thijs J. G. Ettema, X. Morgan, A. Reysenbach, 2024, Nature communications.

Dientamoeba fragilis associated with microbiome diversity changes in acute gastroenteritis patients.

X. Morgan, R. Suwanarusk, Morad-Rémy Muhsin-Sharafaldine, 2023, Parasitology international.

Distributed under Creative Commons Cc-by 4.0 a Reproducible Approach to High-throughput Biological Data Acquisition and Integration

C. Huttenhower, L. Waldron, E. Franzosa, 2022 .

Predicting combinatorial binding of transcription factors to regulatory elements in the human genome by association rule mining

Daniel P. Miranker, V. Iyer, X. Morgan, 2007, BMC Bioinformatics.

International Journal of Systematic and Evolutionary Microbiology Thermorudis pharmacophila WKT50.2T sp. nov., a novel isolate of class Thermomicrobia isolated from geothermal soil, and emended descriptions of Thermomicrobium roseum, Thermomicrobium carboxidum, Thermorudis peleae and Sphaerobacter t

X. Morgan, M. Stott, J. F. Power, 2015 .