American Gut: an Open Platform for Citizen-Science Microbiome Research

McDonalda, Daniel, Hyde, Embriette, Debelius, Justine W., Morton, James T., Gonzalez, Antonio, Ackermann, Gail, Aksenov, Alexander A., Behsaz, Bahar +51 more·2018·mSystems

DOI 10.1101/277970

Cited by (884)

Items 301–400 of 884

The Host-Microbiome Response to Hyperbaric Oxygen Therapy in Ulcerative Colitis Patients
Carlos G. Gonzalez, Robert H. Mills, Melissa C. Kordahi, Marvic Carrillo-Terrazas, Henry Secaira-Morocho, Christella E. Widjaja, Matthew S. Tsai, Yash Mittal, Brian A. Yee, Fernando Vargas et al. · 2022 · Cellular and Molecular Gastroenterology and Hepatology
Personal and Planetary Health—The Connection With Dietary Choices
Urvi Ashok Shah, Gia Merlo · 2023 · JAMA
Cooking at home to retain nutritional quality and minimise nutrient losses: A focus on vegetables, potatoes and pulses
Sarah Coe, Ayela Spiro · 2022 · Nutrition Bulletin
Is the Mediterranean Diet in Inflammatory Bowel Diseases Ready for Prime Time?
Lihi Godny, Iris Dotan · 2023 · Journal of the Canadian Association of Gastroenterology
Anti-diabetic effect of dicaffeoylquinic acids is associated with the modulation of gut microbiota and bile acid metabolism
Yujie Huang, Weiqi Xu, Wei Dong, Guijie Chen, Yi Sun, Xiaoxiong Zeng · 2024 · Journal of Advanced Research
Diet and Immune Effects Trial (DIET)- a randomized, double-blinded dietary intervention study in patients with melanoma receiving immunotherapy
Rachel M. Farias, Yan Jiang, Erma J Levy, Cindy H. Hwang, Jian Wang, Elizabeth M. Burton, Lorenzo G. Cohen, Nadim Ajami, Jennifer Ann Wargo, Carrie R. Daniel et al. · 2024 · BMC Cancer
Learning a deep language model for microbiomes: The power of large scale unlabeled microbiome data
Quintin Pope, Rohan Varma, Christine A. Tataru, Maude M. David, Xiaoli Z. Fern · 2025 · PLoS Computational Biology
The Internal, External and Extended Microbiomes of Hominins
Robert R. Dunn, Katherine Ryan Amato, Elizabeth A. Archie, Mimi Arandjelovic, Alyssa N. Crittenden, Lauren M. Nichols · 2020 · Frontiers in Ecology and Evolution
Agent Based Models of Polymicrobial Biofilms and the Microbiome—A Review
Sherli Koshy-Chenthittayil, Linda S. Archambault, Dhananjai Senthilkumar, Reinhard Laubenbacher, Pedro Mendes, Anna I. Dongari‐Bagtzoglou · 2021 · Microorganisms
Towards multi-label classification: Next step of machine learning for microbiome research
Shunyao Wu, Yuzhu Chen, Zhiruo Li, Jian Li, Fengyang Zhao, Xiaoquan Su · 2021 · Computational and Structural Biotechnology Journal
Postmortem Skeletal Microbial Community Composition and Function in Buried Human Remains
Alexandra L. Emmons, Amy Z. Mundorff, Katharina M. Hoeland, Jonathan Davoren, Sarah W. Keenan, David O. Carter, Shawn Robert Campagna, Jennifer M. DeBruyn · 2022 · mSystems
A Theory of City Biogeography and the Origin of Urban Species
Robert R. Dunn, Joseph Robert Burger, Elizabeth J. Carlen, Amanda M. Koltz, Jessica E. Light, Ryan A. Martin, Jason Munshi‐South, Lauren M. Nichols, Edward L. Vargo, Senay Yitbarek et al. · 2022 · Frontiers in Conservation Science
Tryptophan metabolites and gut microbiota play an important role in pediatric migraine diagnosis
Junhui Liu, Kaiyan Xi, Linlin Zhang, Mugu Han, Qingran Wang, Xinjie Liu · 2024 · The Journal of Headache and Pain
Hallmarks of aging: A user’s guide for comparative biologists
Peggy R. Biga, Jingyue Ellie Duan, Tristan E. Young, Jamie R. Marks, Anne M. Bronikowski, Louis Paul Decena-Segarra, Eric C. Randolph, Ananya Pavuluri, Guangsheng Li, Yifei Fang et al. · 2024 · Ageing Research Reviews
The International Space Station has a unique and extreme microbial and chemical environment driven by use patterns
Rodolfo A. Salido, Haoqi Nina Zhao, Daniel T. McDonald, Helena Mannochio-Russo, Simone Zuffa, Renee E. Oles, Allegra T. Aron, Yasin El Abiead, Sawyer Farmer, Antonio González et al. · 2025 · Cell
Sick Individuals and Sick (Microbial) Populations: Challenges in Epidemiology and the Microbiome
Audrey Renson, Pamela Herd, Jennifer B. Dowd · 2019 · Annual Review of Public Health
Fecal Metabolites as Biomarkers for Predicting Food Intake by Healthy Adults
Leila M Shinn, Aditya Mansharamani, David J. Baer, Janet A. Novotny, Craig S. Charron, Naiman A. Khan, Ruoqing Zhu, Hannah D. Holscher · 2022 · Journal of Nutrition
Environmental influences on childhood asthma—The effect of diet and microbiome on asthma
Nonhlanhla Lunjani, Laura Walsh, Carina Venter, Matthew Power, John A. MacSharry, Desmond M. Murphy, Liam O’Mahony · 2022 · Pediatric Allergy and Immunology
Gut Microbiota in Patients with Morbid Obesity Before and After Bariatric Surgery: a Ten-Year Review Study (2009–2019)
Spyridon G. Koulas, Christos K Stefanou, Stefanos K Stefanou, Kostas Tepelenis, Nikolaos Zikos, Konstantinos Tepetes, Andreas N. Kapsoritakis · 2020 · Obesity Surgery
Evaluation of Compatibility of 16S rRNA V3V4 and V4 Amplicon Libraries for Clinical Microbiome Profiling
Po‐Yu Liu, Wei‐Kai Wu, Chieh‐Chang Chen, Suraphan Panyod, Lee‐Yan Sheen, Ming‐Shiang Wu · 2020 · bioRxiv (Cold Spring Harbor Laboratory)
Temporal nutrition analysis associates dietary regularity and quality with gut microbiome diversity: insights from the Food & You digital cohort
Rohan P. Singh, Daniel McDonald, Alejandra Rios Hernandez, Se Jin Song, Andrew P. Bartko, Rob D. Knight, Marcel Salathé · 2025 · Nature Communications
From dysbiosis to longevity: a narrative review into the gut microbiome’s impact on aging
Ching‐Hung Tseng, Chun‐Ying Wu · 2025 · Journal of Biomedical Science
A Metabolome- and Metagenome-Wide Association Network Reveals Microbial Natural Products and Microbial Biotransformation Products from the Human Microbiota
Liu Cao, Egor Shcherbin, Hosein Mohimani · 2019 · mSystems
Covariate Adaptive False Discovery Rate Control With Applications to Omics-Wide Multiple Testing
Xianyang Zhang, Jun Chen · 2020 · Journal of the American Statistical Association
Learning, visualizing and exploring 16S rRNA structure using an attention-based deep neural network
Zhengqiao Zhao, Stephen Woloszynek, Felix Agbavor, Joshua Chang Mell, Bahrad Ali Sokhansanj, GAIL L. ROSEN · 2021 · PLoS Computational Biology
Butyrate Production Pathway Abundances Are Similar in Human and Nonhuman Primate Gut Microbiomes
Elizabeth K. Mallott, Katherine Ryan Amato · 2021 · Molecular Biology and Evolution
Fecal and soil microbiota composition of gardening and non-gardening families
Marina Brown, Leila M Shinn, Ginger E. Reeser, Matthew H. E. M. Browning, Andiara Schwingel, Naiman A. Khan, Hannah D. Holscher · 2022 · Scientific Reports
Harnessing the power within: engineering the microbiome for enhanced gynecologic health
Caitriona Brennan, Kristina Chan, Tanya Kumar, Erica S. Maissy, Linda T. Brubaker, Marisol I. Dothard, Jack A. Gilbert, Katharine E Gilbert, Amanda L. Lewis, Varykina G. Thackray et al. · 2024 · Reproduction and Fertility
Cardiovascular Disease May Be Triggered by Gut Microbiota, Microbial Metabolites, Gut Wall Reactions, and Inflammation
Leon M. T. Dicks · 2024 · International Journal of Molecular Sciences
Dietary Plant and Animal Protein Sources Oppositely Modulate Fecal Bilophila and Lachnoclostridium in Vegetarians and Omnivores
Ya-Ting Wu, Shou-Ju Shen, Kuan‐Fu Liao, Ching‐Ying Huang · 2022 · Microbiology Spectrum
Breast Cancer Survivors and Healthy Women: Could Gut Microbiota Make a Difference?—“BiotaCancerSurvivors”: A Case-Control Study
Telma Caleça, Pedro Ribeiro, Marina Miguel Vitorino, Maria Menezes, Mafalda Sampaio-Alves, Ana Duarte Mendes, Rodrigo Santos Vicente, Ida Negreiros, Ana Faria, Diogo Alpuim Costa · 2023 · Cancers
Precision medicine in perinatal depression in light of the human microbiome
Beatriz Peñalver Bernabé, Pauline M. Maki, Shannon M. Dowty, Mariana Lauren Cralle Salas, Lauren E. Cralle, Zainab Shah, Jack A. Gilbert · 2020 · Psychopharmacology
A randomization-based causal inference framework for uncovering environmental exposure effects on human gut microbiota
Alice Sommer, Annette Peters, Martina Rommel, Josef Cyrys, Harald Grallert, Dirk Haller, Christian L. Müller, Marie‐Abèle Bind · 2022 · PLoS Computational Biology
Characterising the Gut Microbiomes in Wild and Captive Short-Beaked Echidnas Reveals Diet-Associated Changes
Tahlia Perry, Ella West, Raphael Eisenhofer, Alan Stenhouse, Isabella Wilson, Belinda Laming, Peggy D. Rismiller, Michelle E. Shaw, Frank Grützner · 2022 · Frontiers in Microbiology
Talking about a microbiome revolution
John F. Cryan, Timothy G. Dinan · 2019 · Nature Microbiology
Electrochemical assays for microbial analysis: how far they are from solving microbiota and microbiome challenges
Elena E. Ferapontova · 2020 · Current Opinion in Electrochemistry
Re-evaluating the relationship between missing heritability and the microbiome
Gavin M. Douglas, Joseph P. Bielawski, Morgan G. I. Langille · 2020 · Microbiome
Microbiome Search Engine 2: a Platform for Taxonomic and Functional Search of Global Microbiomes on the Whole-Microbiome Level
Gongchao Jing, Lu Liu, Zengbin Wang, Yufeng Zhang, Qian Li, Chunxiao Gao, Meng Zhang, Min Li, Zhenkun Zhang, Xiaohan Liu et al. · 2021 · mSystems
Multiple-Disease Detection and Classification across Cohorts via Microbiome Search
Xiaoquan Su, Gongchao Jing, Zheng Sun, Lu Liu, Zhenjiang Zech Xu, Daniel T. McDonald, Zengbin Wang, Honglei Wang, Antonio Gonzalez, Yufeng Zhang et al. · 2020 · mSystems
Trait Energy and Fatigue May Be Connected to Gut Bacteria among Young Physically Active Adults: An Exploratory Study
Ali Boolani, Karyn M. Gallivan, Kristin S. Ondrak, Courtney Jayde Christopher, Hector F. Castro, Shawn Robert Campagna, Christopher M. Taylor, Meng Luo, Scot E. Dowd, Matthew Lee Smith et al. · 2022 · Nutrients
fast.adonis: a computationally efficient non-parametric multivariate analysis of microbiome data for large-scale studies
Shilan Li, Emily Vogtmann, Barry I. Graubard, Mitchell H. Gail, Christian C. Abnet, Jianxin Shi · 2022 · Bioinformatics Advances
The Local Tumor Microbiome Is Associated with Survival in Late-Stage Colorectal Cancer Patients
Justine W. Debelius, Lars G. Engstrand, Andreas Matussek, Nele Brusselaers, James T. Morton, Margaretha Stenmarker, Renate Slind Olsen · 2023 · Microbiology Spectrum
Determination of Effect Sizes for Power Analysis for Microbiome Studies Using Large Microbiome Databases
Gibraan Rahman, Daniel T. McDonald, Antonio González, Yoshiki Vázquez‐Baeza, Lingjing Jiang, Climent Casals‐Pascual, Daniel Hakim, Amanda Hazel Dilmore, Brent Nowinski, Shyamal Peddada et al. · 2023 · Genes
The evolution of nutrition management in children with severe neurological impairment with a focus on cerebral palsy
Stina Oftedal, Siobhan McCormack, Richard D. Stevenson, Katherine A Benfer, Roslyn Nancy Boyd, Kristie L Bell · 2024 · Journal of Human Nutrition and Dietetics
Cross‐Cohort Gut Microbiome Signatures of Irritable Bowel Syndrome Presentation and Treatment
Junhui Li, Tarini Shankar Ghosh, Elke K. Arendt, Fergus Shanahan, Paul William O’Toole · 2024 · Advanced Science
Effects of cat ownership on the gut microbiota of owners
Guankui Du, Hairong Huang, Qiwei Zhu, Ying Li · 2021 · PLoS ONE
Fibra dietaria y microbiota, revisión narrativa de un grupo de expertos de la Asociación Mexicana de Gastroenterología
A.T. Abreu y Abreu, María del Pilar Milke-García, G.A. Argüello-Arévalo, Ana María Calderón de la Barca, Ramón Carmona-Sánchez, Alejandra Consuelo‐Sánchez, Enrique Coss‐Adame, Maria F. Garcia Cedillo, Vanessa Hernández-Rosiles, María Eugenia Icaza-Chávez et al. · 2021 · Revista de Gastroenterología de México
The associations of butyrate-producing bacteria of the gut microbiome with diet quality and muscle health
Jessica A. Davis, Fiona Collier, Mohammadreza Mohebbi, Julie Anne Pasco, Nitin Shivappa, James R. Hébert, Felice N. Jacka, Amy Loughman · 2021 · Gut Microbiome
Integrating Dietary Data into Microbiome Studies: A Step Forward for Nutri-Metaomics
Francisca Yáñez, Zaida Soler, Manon Oliero, Zixuan Xie, Iñigo Oyarzun, Gerard Serrano-Gómez, Chaysavanh Manichanh · 2021 · Nutrients
Military-Related Exposures, Social Determinants of Health, and Dysbiosis: The United States-Veteran Microbiome Project (US-VMP)
Lisa A. Brenner, Andrew J. Hoisington, Kelly A. Stearns‐Yoder, Christopher E. Stamper, Jared D. Heinze, Teodor T. Postolache, Daniel A. Hadidi, Claire A. Hoffmire, Maggie A. Stanislawski, Christopher A. Lowry · 2018 · Frontiers in Cellular and Infection Microbiology
The effect of oral synbiotics on the gut microbiota and inflammatory biomarkers in healthy adults: a systematic review and meta-analysis
Denelle Cosier, Kelly Lambert, Elizabeth Phillipa Neale, Yasmine Probst, Karen Elizabeth Charlton · 2024 · Nutrition Reviews
Obesity and ethnicity alter gene expression in skin
Jeanne M. Walker, Sandra Garcet, José O. Alemán, Christopher E. Mason, David Danko, Daniel Butler, Simone Zuffa, Jonathan Richard Swann, James G. Krueger, Jan L. Breslow et al. · 2020 · Scientific Reports
Meta-analysis cum machine learning approaches address the structure and biogeochemical potential of marine copepod associated bacteriobiomes
Balamurugan Sadaiappan, Chinnamani Prasannakumar, Uthara V Nambiar, Mahendran Subramanian, Mangesh Gauns · 2021 · Scientific Reports
Phytochemicals: Do they belong on our plate for sustaining healthspan?
Jed W. Fahey, Thomas W. Kensler · 2021 · Food Frontiers
Innovative methods for remote assessment of neurobehavioral development
Hanna Gustafsson, Anna S. Young, Gayle Stamos, Sydney Wilken, Natalie H. Brito, Moriah E. Thomason, Alice M. Graham, Joel T. Nigg, Elinor L. Sullivan · 2021 · Developmental Cognitive Neuroscience
Predicting the Role of the Human Gut Microbiome in Constipation Using Machine-Learning Methods: A Meta-Analysis
Yutao Chen, Tong Wu, Wenwei Lu, Weiwei Yuan, Mingluo Pan, Yuan Kun Lee, Jianxin Zhao, Hao Zhang, Wei Chen, Jinlin Zhu et al. · 2021 · Microorganisms
Comparative metagenomics analysis reveals how the diet shapes the gut microbiota in several small mammals
Fengjun Li, Shengzhi Yang, Linwan Zhang, Lu Qiao, Lei Wang, Song He, Jian Li, Nan Yang, Bisong Yue, Chuang Zhou · 2022 · Ecology and Evolution
Personal diet–microbiota interactions and weight loss
Henrik Munch Roager, Lars H. Christensen · 2022 · Proceedings of The Nutrition Society
Oxalobacter formigenes: A new hope as a live biotherapeutic agent in the management of calcium oxalate renal stones
Shridhar Shivakumar Hiremath, Pragasam Viswanathan · 2022 · Anaerobe
Nutri-microbiome epidemiology, an emerging field to disentangle the interplay between nutrition and microbiome for human health
Wanglong Gou, Zelei Miao, Kui Deng, Ju‐Sheng Zheng · 2023 · Protein & Cell
Comparative analysis of full-length 16s ribosomal RNA genome sequencing in human fecal samples using primer sets with different degrees of degeneracy
Christian Waechter, Leon Fehse, Marius Welzel, Dominik Heider, Lek Babalija, Juan Cheko, Julian Mueller, Jochen Pöling, Thomas W Braun, Sabine Pankuweit et al. · 2023 · Frontiers in Genetics
Microbiome features associated with performance measures in athletic and non-athletic individuals: A case-control study
Kinga Humińska‐Lisowska, Kinga Zielińska, Jan Mieszkowski, Monika Michałowska‐Sawczyn, Paweł Cięszczyk, Paweł P. Łabaj, Bartosz Wasąg, Barbara Frączek, Anna Grzywacz, Andrzej Kochanowicz et al. · 2024 · PLoS ONE
The Microbiome and Its Potential for Pharmacology
Aries Chavira, Pedro Belda‐Ferre, Tomasz Kościółek, Farhana Ali, Pieter C. Dorrestein, Rob D. Knight · 2019 · Handbook of experimental pharmacology
Decoding the language of microbiomes using word-embedding techniques, and applications in inflammatory bowel disease
Christine A. Tataru, Maude M. David · 2020 · PLoS Computational Biology
Depression in Individuals Coinfected with HIV and HCV Is Associated with Systematic Differences in the Gut Microbiome and Metabolome
Bryn C. Taylor, Kelly C. Weldon, Ronald J. Ellis, Donald Franklin, Tobin Groth, Emily C. Gentry, Anupriya Tripathi, Daniel T. McDonald, Gregory Humphrey, MacKenzie Bryant et al. · 2020 · mSystems
Gut microbiome and cardiometabolic comorbidities in people living with HIV
Marius Trøseid, Susanne Dam Nielsen, Ivan Vujkovic-Cvijin · 2024 · Microbiome
Aberrant bowel movement frequencies coincide with increased microbe-derived blood metabolites associated with reduced organ function
Johannes P. Johnson-Martínez, Christian Diener, Anne E. Levine, Tomasz Maciej Wilmanski, David L. Suskind, Alexandra Ralevski, Jennifer Hadlock, Andrew T. Magis, Leroy Hood, Noa Rappaport et al. · 2024 · Cell Reports Medicine
Associations between gut microbiota and incident fractures in the FINRISK cohort
Louise Grahnemo, Oleg Kambur, Leo Lahti, Pekka Jousilahti, Teemu Niiranen, Rob D. Knight, Veikko V Salomaa, Aki Samuli Havulinna, Claes Ohlsson · 2024 · npj Biofilms and Microbiomes
The Role of Gut Microbiota in Modulating Cancer Therapy Efficacy
Mostafa A. Madkour, Rawan A. Altaf, Zeinab S. Sayed, Noha S. Yasen, Hanan A. Elbary, Reem A. Elsayed, Esraa N. Mohamed, Mohamed Toema, Al-Hassan Soliman Wadan, Mohamed H. Nafady et al. · 2024 · Advanced Gut & Microbiome Research
Recent advances in deep learning and language models for studying the microbiome
Binghao Yan, Yunbi Nam, Lingyao Li, Rebecca A. Deek, Hongzhe Li, Siyuan Ma · 2025 · Frontiers in Genetics
A Zero-Inflated Latent Dirichlet Allocation Model for Microbiome Studies
Rebecca A. Deek, Hongzhe Li · 2021 · Frontiers in Genetics
The holobiont mind: A bridge between 4E cognition and the microbiome
Ismael Palacios-García, Francisco J. Parada · 2021 · Adaptive Behavior
Diet Is a Stronger Covariate than Exercise in Determining Gut Microbial Richness and Diversity
Eon-Joo Yun, Saba Imdad, Jun-Ho Jang, Jin-Han Park, Byunghun So, Jinhee Kim, Chounghun Kang · 2022 · Nutrients
Excess fermentation and lactic acidosis as detrimental functions of the gut microbes in treatment-naive TB patients
Milyausha M. Yunusbaeva, Liliya Borodina, Darya Terentyeva, Anna A. Bogdanova, Aigul Zakirova, Shamil Bulatov, Radick Altinbaev, Fanil S. Bilalov, Bayazit Yunusbayev · 2024 · Frontiers in Cellular and Infection Microbiology
Diet Mediate the Impact of Host Habitat on Gut Microbiome and Influence Clinical Indexes by Modulating Gut Microbes and Serum Metabolites
Jiguo Zhang, Houbao Qi, Meihui Li, Zhihong Wang, Xiaofang Jia, Tianyong Sun, Shufa Du, Chang Su, Mengfan Zhi, Wenwen Du et al. · 2024 · Advanced Science
Scientific Discovery Games for Biomedical Research
Rhiju Das, Benjamin Keep, Peter Yigitcan Washington, Ingmar Hans Riedel-Kruse · 2019 · Annual Review of Biomedical Data Science
Vitamin B and vitamin D as modulators of gut microbiota in overweight individuals
Shangfei Jiang, Qiwei Zhu, Mingxiao Mai, Wen Yi Yang, Guankui Du · 2020 · International Journal of Food Sciences and Nutrition
The Southern Bluefin Tuna Mucosal Microbiome Is Influenced by Husbandry Method, Net Pen Location, and Anti-parasite Treatment
Jeremiah J. Minich, Cecilia Power, Michaela Melanson, Rob D. Knight, Claire Webber, Kirsten Rough, Nathan J. Bott, Barbara F. Nowak, Eric E. Allen · 2020 · Frontiers in Microbiology
The Gut Microbiome and Abiotic Factors as Potential Determinants of Postprandial Glucose Responses: A Single-Arm Meal Study
Nathalie Nestel, Josephine D. Hvass, Martin Iain Bahl, Lars Hestbjerg Hansen, Łukasz Krych, Dennis Sandris Nielsen, Lars Ove Dragsted, Henrik Munch Roager · 2021 · Frontiers in Nutrition
A Pilot Study of the Effect of Deployment on the Gut Microbiome and Traveler’s Diarrhea Susceptibility
Blake W. Stamps, Wanda J. Lyon, Adam P. Irvin, Nancy Kelley‐Loughnane, Michael S. Goodson · 2020 · Frontiers in Cellular and Infection Microbiology
Structure of Chimpanzee Gut Microbiomes across Tropical Africa
Clifton P. Bueno de Mesquita, Lauren M. Nichols, Matthew J. Gebert, Caihong Vanderburgh, Gaëlle Bocksberger, Jack D. Lester, Ammie K. Kalan, Paula Dieguez, Maureen S. McCarthy, Anthony Agbor et al. · 2021 · mSystems
Impact of Food-Based Weight Loss Interventions on Gut Microbiome in Individuals with Obesity: A Systematic Review
Aleisha Bliesner, Jade Eccles‐Smith, Claire Bates, Olivia Hayes, Jet Yee Ho, Cátia Martins, Helen Truby, Marloes Dekker Nitert · 2022 · Nutrients
Moving beyond descriptive studies: harnessing metabolomics to elucidate the molecular mechanisms underpinning host-microbiome phenotypes
Stephanie L. Bishop, Marija Drikic, Sören Wacker, Yuan Yao Chen, Anita Luba Kozyrskyj, Ian A. Lewis · 2022 · Mucosal Immunology
Epidemiological and microbiome associations of Clostridioides difficile carriage in infancy and early childhood
Jyoti Mani, Shira Levy, Angelina G. Angelova, Sahel Hazrati, Ryan Fassnacht, Poorani Subramanian, Tiana Richards, John E. Niederhuber, George L. Maxwell, Suchitra K. Hourigan · 2023 · Gut Microbes
Food allergy prevention: Where are we in 2023?
Carina Venter, Peter Kenneth Smith, David Mark Fleischer · 2023 · Asia Pacific Allergy
Robust regression with compositional covariates
Aditya K. Mishra, Christian L. Müller · 2021 · Computational Statistics & Data Analysis
Using data science for medical decision making case: role of gut microbiome in multiple sclerosis
Jasminka Hasić Telalović, Azra Musić · 2020 · BMC Medical Informatics and Decision Making
Citizen science as an instrument for women’s health research
Sarah Ahannach, Ine Van Hoyweghen, Véronique Verhoeven, Sarah Lebeer · 2024 · Nature Medicine
Medication use is associated with distinct microbial features in anxiety and depression
Amanda Hazel Dilmore, Rayus Kuplicki, Daniel L. McDonald, Megha Kumar, Mehrbod Estaki, Nicholas D. Youngblut, Alexander Tyakht, Gail L. Ackermann, Colette Blach, Siamak MahmoudianDehkordi et al. · 2025 · Molecular Psychiatry
TADA: phylogenetic augmentation of microbiome samples enhances phenotype classification
Erfan Sayyari, Ban Kawas, Siavash Mirarab · 2019 · Bioinformatics
Diet Affects the Gastrointestinal Microbiota and Health
Hannah D. Holscher · 2020 · Journal of the Academy of Nutrition and Dietetics
Ranking Metabolite Sets by Their Activity Levels
Karen McLuskey, Joe Wandy, Isabel M. Vincent, Justin J. J. van der Hooft, Simon Rogers, Karl E. Burgess, Rónán Daly · 2021 · Metabolites
Is dietary quality associated with depression? An analysis of the Australian Longitudinal Study on Women’s Health data
Megan Frances Lee, Joanne Bradbury, Jacqui Yoxall, Sally J. E. Sargeant · 2022 · British Journal Of Nutrition
The Microbiome’s Influence on Head and Neck Cancers
Karolina Dorobisz, Tadeusz Andrzej Dorobisz, Tomasz Zatoński · 2023 · Current Oncology Reports
Systematic mapping of drug metabolism by the human gut microbiome
Pranatchareeya Chankhamjon, Bahar Javdan, Jaime G Lopez, Raphaella Hull, Seema Chatterjee, Mohamed S. Donia · 2019 · bioRxiv (Cold Spring Harbor Laboratory)
Removal of rare amplicon sequence variants from 16S rRNA gene sequence surveys biases the interpretation of community structure data
Patrick D. Schloss · 2020 · bioRxiv (Cold Spring Harbor Laboratory)
tascCODA: Bayesian Tree-Aggregated Analysis of Compositional Amplicon and Single-Cell Data
Johannes Ostner, Salomé Carcy, Christian L. Müller · 2021 · Frontiers in Genetics
Techniques for learning and transferring knowledge for microbiome-based classification and prediction: review and assessment
Jin Han, Haohong Zhang, Kang Ning · 2024 · Briefings in Bioinformatics
Butyrate Produced by Gut Microbiota Regulates Atherosclerosis: A Narrative Review of the Latest Findings
Leon M. T. Dicks · 2025 · International Journal of Molecular Sciences
Microbiome-guided precision medicine: Mechanistic insights, multi-omics integration, and translational horizons
Umama Shahid · 2025 · The Journal of Precision Medicine Health and Disease