Systematically assessing microbiome–disease associations identifies drivers of inconsistency in metagenomic research
Author
Abstract
Suggested Citation
DOI: 10.1371/journal.pbio.3001556
Download full text from publisher
References listed on IDEAS
- Claire Duvallet & Sean M. Gibbons & Thomas Gurry & Rafael A. Irizarry & Eric J. Alm, 2017. "Meta-analysis of gut microbiome studies identifies disease-specific and shared responses," Nature Communications, Nature, vol. 8(1), pages 1-10, December.
- Jacob T. Nearing & Gavin M. Douglas & Molly G. Hayes & Jocelyn MacDonald & Dhwani K. Desai & Nicole Allward & Casey M. A. Jones & Robyn J. Wright & Akhilesh S. Dhanani & André M. Comeau & Morgan G. I., 2022. "Microbiome differential abundance methods produce different results across 38 datasets," Nature Communications, Nature, vol. 13(1), pages 1-16, December.
- Alan Le Goallec & Braden T Tierney & Jacob M Luber & Evan M Cofer & Aleksandar D Kostic & Chirag J Patel, 2020. "A systematic machine learning and data type comparison yields metagenomic predictors of infant age, sex, breastfeeding, antibiotic usage, country of origin, and delivery type," PLOS Computational Biology, Public Library of Science, vol. 16(5), pages 1-21, May.
- Jacob T. Nearing & Gavin M. Douglas & Molly G. Hayes & Jocelyn MacDonald & Dhwani K. Desai & Nicole Allward & Casey M. A. Jones & Robyn J. Wright & Akhilesh S. Dhanani & André M. Comeau & Morgan G. I., 2022. "Author Correction: Microbiome differential abundance methods produce different results across 38 datasets," Nature Communications, Nature, vol. 13(1), pages 1-1, December.
- Braden T. Tierney & Yingxuan Tan & Aleksandar D. Kostic & Chirag J. Patel, 2021. "Gene-level metagenomic architectures across diseases yield high-resolution microbiome diagnostic indicators," Nature Communications, Nature, vol. 12(1), pages 1-12, December.
- Viechtbauer, Wolfgang, 2010. "Conducting Meta-Analyses in R with the metafor Package," Journal of Statistical Software, Foundation for Open Access Statistics, vol. 36(i03).
- Daphna Rothschild & Omer Weissbrod & Elad Barkan & Alexander Kurilshikov & Tal Korem & David Zeevi & Paul I. Costea & Anastasia Godneva & Iris N. Kalka & Noam Bar & Smadar Shilo & Dar Lador & Arnau Vi, 2018. "Environment dominates over host genetics in shaping human gut microbiota," Nature, Nature, vol. 555(7695), pages 210-215, March.
- Ivan Vujkovic-Cvijin & Jack Sklar & Lingjing Jiang & Loki Natarajan & Rob Knight & Yasmine Belkaid, 2020. "Host variables confound gut microbiota studies of human disease," Nature, Nature, vol. 587(7834), pages 448-454, November.
Most related items
These are the items that most often cite the same works as this one and are cited by the same works as this one.- Karen D. Corbin & Elvis A. Carnero & Blake Dirks & Daria Igudesman & Fanchao Yi & Andrew Marcus & Taylor L. Davis & Richard E. Pratley & Bruce E. Rittmann & Rosa Krajmalnik-Brown & Steven R. Smith, 2023. "Host-diet-gut microbiome interactions influence human energy balance: a randomized clinical trial," Nature Communications, Nature, vol. 14(1), pages 1-17, December.
- Zachary D. Wallen & Ayse Demirkan & Guy Twa & Gwendolyn Cohen & Marissa N. Dean & David G. Standaert & Timothy R. Sampson & Haydeh Payami, 2022. "Metagenomics of Parkinson’s disease implicates the gut microbiome in multiple disease mechanisms," Nature Communications, Nature, vol. 13(1), pages 1-20, December.
- Maria Rita Perrone & Salvatore Romano & Giuseppe De Maria & Paolo Tundo & Anna Rita Bruno & Luigi Tagliaferro & Michele Maffia & Mattia Fragola, 2022. "Compositional Data Analysis of 16S rRNA Gene Sequencing Results from Hospital Airborne Microbiome Samples," IJERPH, MDPI, vol. 19(16), pages 1-21, August.
- Kai Markus Schneider & Antje Mohs & Wenfang Gui & Eric J. C. Galvez & Lena Susanna Candels & Lisa Hoenicke & Uthayakumar Muthukumarasamy & Christian H. Holland & Carsten Elfers & Konrad Kilic & Caroli, 2022. "Imbalanced gut microbiota fuels hepatocellular carcinoma development by shaping the hepatic inflammatory microenvironment," Nature Communications, Nature, vol. 13(1), pages 1-19, December.
- Whitney S Beck & Ed K Hall, 2018. "Confounding factors in algal phosphorus limitation experiments," PLOS ONE, Public Library of Science, vol. 13(10), pages 1-19, October.
- Bart Verkuil & Serpil Atasayi & Marc L Molendijk, 2015. "Workplace Bullying and Mental Health: A Meta-Analysis on Cross-Sectional and Longitudinal Data," PLOS ONE, Public Library of Science, vol. 10(8), pages 1-16, August.
- Francesca Pilotto & Ingolf Kühn & Rita Adrian & Renate Alber & Audrey Alignier & Christopher Andrews & Jaana Bäck & Luc Barbaro & Deborah Beaumont & Natalie Beenaerts & Sue Benham & David S. Boukal & , 2020. "Meta-analysis of multidecadal biodiversity trends in Europe," Nature Communications, Nature, vol. 11(1), pages 1-11, December.
- repec:cup:judgdm:v:15:y:2020:i:6:p:972-988 is not listed on IDEAS
- Jonas Schmidt & Tammo H. A. Bijmolt, 2020. "Accurately measuring willingness to pay for consumer goods: a meta-analysis of the hypothetical bias," Journal of the Academy of Marketing Science, Springer, vol. 48(3), pages 499-518, May.
- Alexandra M. Cheney & Stephanann M. Costello & Nicholas V. Pinkham & Annie Waldum & Susan C. Broadaway & Maria Cotrina-Vidal & Marc Mergy & Brian Tripet & Douglas J. Kominsky & Heather M. Grifka-Walk , 2023. "Gut microbiome dysbiosis drives metabolic dysfunction in Familial dysautonomia," Nature Communications, Nature, vol. 14(1), pages 1-12, December.
- Mario Herberz & Tobias Brosch & Ulf J. J. Hahnel, 2020. "Kilo what? Default units increase value sensitivity in joint evaluations of energy efficiency," Judgment and Decision Making, Society for Judgment and Decision Making, vol. 15(6), pages 972-988, November.
- Piers Steel & Sjoerd Beugelsdijk & Herman Aguinis, 2021. "The anatomy of an award-winning meta-analysis: Recommendations for authors, reviewers, and readers of meta-analytic reviews," Journal of International Business Studies, Palgrave Macmillan;Academy of International Business, vol. 52(1), pages 23-44, February.
- Jos A. Bosch & Max Nieuwdorp & Aeilko H. Zwinderman & Mélanie Deschasaux & Djawad Radjabzadeh & Robert Kraaij & Mark Davids & Susanne R. Rooij & Anja Lok, 2022. "The gut microbiota and depressive symptoms across ethnic groups," Nature Communications, Nature, vol. 13(1), pages 1-14, December.
- Augusteijn, Hilde Elisabeth Maria & van Aert, Robbie Cornelis Maria & van Assen, Marcel A. L. M., 2021. "Posterior Probabilities of Effect Sizes and Heterogeneity in Meta-Analysis: An Intuitive Approach of Dealing with Publication Bias," OSF Preprints avkgj, Center for Open Science.
- Georgiou, George K. & Guo, Kan & Naveenkumar, Nithya & Vieira, Ana Paula Alves & Das, J.P., 2020. "PASS theory of intelligence and academic achievement: A meta-analytic review," Intelligence, Elsevier, vol. 79(C).
- Geller, Susann & Wilhelm, Oliver & Wacker, Jan & Hamm, Alfons & Hildebrandt, Andrea, 2017. "Associations of the COMT Val158Met polymorphism with working memory and intelligence – A review and meta-analysis," Intelligence, Elsevier, vol. 65(C), pages 75-92.
- Gignac, Gilles E. & Bates, Timothy C., 2017. "Brain volume and intelligence: The moderating role of intelligence measurement quality," Intelligence, Elsevier, vol. 64(C), pages 18-29.
- Stephan Kambach & Ingolf Kühn & Bastien Castagneyrol & Helge Bruelheide, 2016. "The Impact of Tree Diversity on Different Aspects of Insect Herbivory along a Global Temperature Gradient - A Meta-Analysis," PLOS ONE, Public Library of Science, vol. 11(11), pages 1-14, November.
- repec:cup:judgdm:v:14:y:2019:i:3:p:234-279 is not listed on IDEAS
- Senlin Zhou & Yunpeng Wu & Xizheng Xu, 2023. "Linking Cognitive Reappraisal and Expressive Suppression to Mindfulness: A Three-Level Meta-Analysis," IJERPH, MDPI, vol. 20(2), pages 1-16, January.
- Mahesh Shumsher Rughooputh & Rui Zeng & Ying Yao, 2015. "Protein Diet Restriction Slows Chronic Kidney Disease Progression in Non-Diabetic and in Type 1 Diabetic Patients, but Not in Type 2 Diabetic Patients: A Meta-Analysis of Randomized Controlled Trials ," PLOS ONE, Public Library of Science, vol. 10(12), pages 1-17, December.
- de la Cruz, Vera Ysabel V. & Tantriani, & Cheng, Weiguo & Tawaraya, Keitaro, 2023. "Yield gap between organic and conventional farming systems across climate types and sub-types: A meta-analysis," Agricultural Systems, Elsevier, vol. 211(C).
Corrections
All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:plo:pbio00:3001556. See general information about how to correct material in RePEc.
If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.
If CitEc recognized a bibliographic reference but did not link an item in RePEc to it, you can help with this form .
If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.
For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: plosbiology (email available below). General contact details of provider: https://journals.plos.org/plosbiology/ .
Please note that corrections may take a couple of weeks to filter through the various RePEc services.