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Author Details

Sean M Gibbons
Institute for Systems Biology
2009
80
34
PMIDPaper TitleJournal TitlePublished Year
37162960Personalized <i>Clostridioides difficile</i> engraftment risk prediction and probiotic therapy assessment in the human gut.bioRxiv2024
36945445Generally-healthy individuals with aberrant bowel movement frequencies show enrichment for microbially-derived blood metabolites associated with reduced kidney function.bioRxiv2024
36941332Multiomic signatures of body mass index identify heterogeneous health phenotypes and responses to a lifestyle intervention.Nat Med2023
37863966Disease-specific loss of microbial cross-feeding interactions in the human gut.Nat Commun2023
37709733Growth phase estimation for abundant bacterial populations sampled longitudinally from human stool metagenomes.Nat Commun2023
37853370Bifidobacterium infantis supplementation versus placebo in early life to improve immunity in infants exposed to HIV: a protocol for a randomized trial.BMC Complement Med Ther2023
37517959A changing gut virome ecological landscape with longevity.Trends Microbiol2023
37609334Island biogeography theory and the gut: why taller people tend to harbor more diverse gut microbiomes.bioRxiv2023
36943046More is Different: Metabolic Modeling of Diverse Microbial Communities.mSystems2023
37442093Coarse graining the human gut microbiome.Cell Host Microbe2023
36909644Microbial community-scale metabolic modeling predicts personalized short chain fatty acid production profiles in the human gut.bioRxiv2023
36357685Genome-microbiome interplay provides insight into the determinants of the human blood metabolome.Nat Metab2022
35690059Heterogeneity in statin responses explained by variation in the human gut microbiome.Med2022
35776947Perspective: Leveraging the Gut Microbiota to Predict Personalized Responses to Dietary, Prebiotic, and Probiotic Interventions.Adv Nutr2022
37118282Healthy aging and the human gut microbiome: why we cannot just turn back the clock.Nat Aging2022
33947809Correction for Vangay et al., "Microbiome Metadata Standards: Report of the National Microbiome Data Collaborative's Workshop and Follow-On Activities".mSystems2021
33794144Elevated rates of horizontal gene transfer in the industrialized human microbiome.Cell2021
33622857Microbiome Metadata Standards: Report of the National Microbiome Data Collaborative's Workshop and Follow-On Activities.mSystems2021
33621265Lettuce (Lactuca sativa) productivity influenced by microbial inocula under nitrogen-limited conditions in aquaponics.PLoS One2021
33619379Gut microbiome pattern reflects healthy ageing and predicts survival in humans.Nat Metab2021
33731896Author Correction: Gut microbiome pattern reflects healthy ageing and predicts survival in humans.Nat Metab2021
33563788Sulfur Metabolites Play Key System-Level Roles in Modulating Denitrification.mSystems2021
33890557From taxonomy to metabolic output: what factors define gut microbiome health?Gut Microbes2021
33750910Non-responder phenotype reveals apparent microbiome-wide antibiotic tolerance in the murine gut.Commun Biol2021
34519531Baseline Gut Metagenomic Functional Gene Signature Associated with Variable Weight Loss Responses following a Healthy Lifestyle Intervention in Humans.mSystems2021
34536346Genomic and functional characterization of a mucosal symbiont involved in early-stage colorectal cancer.Cell Host Microbe2021
34117230The geometry of clinical labs and wellness states from deeply phenotyped humans.Nat Commun2021
32471946Longitudinal analysis reveals transition barriers between dominant ecological states in the gut microbiome.Proc Natl Acad Sci U S A2020
31964767MICOM: Metagenome-Scale Modeling To Infer Metabolic Interactions in the Gut Microbiota.mSystems2020
33060586Health and disease markers correlate with gut microbiome composition across thousands of people.Nat Commun2020
32879463Publisher Correction: Keystone taxa indispensable for microbiome recovery.Nat Microbiol2020
32839573Keystone taxa indispensable for microbiome recovery.Nat Microbiol2020
30687263The Microbiome Stress Project: Toward a Global Meta-Analysis of Environmental Stressors and Their Effects on Microbial Communities.Front Microbiol2019
31355057Proximate grassland and shrub-encroached sites show dramatic restructuring of soil bacterial communities.PeerJ2019
31399723Author Correction: Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2.Nat Biotechnol2019
31341288Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2.Nat Biotechnol2019
31253856Use and abuse of correlation analyses in microbial ecology.ISME J2019
31477923Blood metabolome predicts gut microbiome α-diversity in humans.Nat Biotechnol2019
31120028Defining Microbiome Health through a Host Lens.mSystems2019
31028005Adaptive Evolution within Gut Microbiomes of Healthy People.Cell Host Microbe2019
29205932Designing synbiotics for improved human health.Microb Biotechnol2018
30106224Systems biology approaches towards predictive microbial ecology.Environ Microbiol2018
29899513Endospores and other lysis-resistant bacteria comprise a widely shared core community within the human microbiota.ISME J2018
30139999Predictability and persistence of prebiotic dietary supplementation in a healthy human cohort.Sci Rep2018
30110640Orthogonal Dietary Niche Enables Reversible Engraftment of a Gut Bacterial Commensal.Cell Rep2018
29684016Correcting for batch effects in case-control microbiome studies.PLoS Comput Biol2018
28744486Multi-omics Analysis of Periodontal Pocket Microbial Communities Pre- and Posttreatment.mSystems2017
28222117Two dynamic regimes in the human gut microbiome.PLoS Comput Biol2017
28217960Metapopulation theory provides new insight into microbial biogeography.Environ Microbiol2017
28289729Invasive Plants Rapidly Reshape Soil Properties in a Grassland Ecosystem.mSystems2017
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Collaborators

Jack A Gilbert
Scripps Institution of Oceanography, University of California San Diego
Co-authored papers 20
Nathan D Price
Institute for Systems Biology
Co-authored papers 11
Andrew T Magis
Institute for Systems Biology
Co-authored papers 11
Eric J Alm
Massachusetts Institute of Technology 21 Ames St. Cambridge
Co-authored papers 11
Leroy Hood
Center for Phenomic Health, The Buck Institute for Research on Aging
Co-authored papers 10
Nitin S Baliga
Institute for Systems Biology
Co-authored papers 6
Rob Knight
University of California
Co-authored papers 6
Luke R Thompson
Northern Gulf Institute, Mississippi State University
Co-authored papers 5
John C Earls
Institute for Systems Biology
Co-authored papers 5
Daniel McDonald
University of California San Diego
Co-authored papers 4
Antonio Gonzalez
University of California San Diego School of Medicine
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Yoshiki V??zquez-Baeza
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Pieter C Dorrestein
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Qiyun Zhu
Biodesign Center for Fundamental and Applied Microbiomics, Arizona State University
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Eric S Orwoll
Metabolism and Clinical Nutrition, Oregon Health and Sciences University.
Co-authored papers 3
Stefan Janssen
Co-authored papers 3
Joshua Ladau
Lawrence Berkeley National Laboratory
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Morgan G I Langille
Dalhousie University
Co-authored papers 2
Austin D Swafford
Center for Microbiome Innovation, University of California San Diego
Co-authored papers 2
Clarisse Marotz
University of California San Diego
Co-authored papers 2
Gustavo Glusman
Institute for Systems Biology
Co-authored papers 2
Lee Ann McCue
Pacific Northwest National Laboratory
Co-authored papers 2
Lorna Richardson
European Bioinformatics Institute (EMBL-EBI)
Co-authored papers 2
Emiley A Eloe-Fadrosh
DOE Joint Genome Institute, Lawrence Berkeley National Laboratory
Co-authored papers 2
Pajau Vangay
University of Minnesota
Co-authored papers 2
Peter J Turnbaugh
University of California san francisco
Co-authored papers 2
Alan K Jarmusch
Co-authored papers 2
Simon Roux
DOE Joint Genome Institute, Lawrence Berkeley National Laboratory
Co-authored papers 2
Stanton L Martin
Oak Ridge National Laboratory
Co-authored papers 2
Lynn M Schriml
University of Maryland School of Medicine, Institute for Genome Sciences
Co-authored papers 2
Release 1.2