Chapter 12: Human Microbiome Analysis
Morgan, Xochitl C., Huttenhower, Curtis·2012·PLoS Computational Biology
Cited by (491)
Items 301–400 of 491
- The oral microbiomeLiam P. Shaw, Andrew Mark Smith, Adam Paul Roberts · 2017 · Emerging Topics in Life Sciences
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- Characterising the gut microbiome of stranded harbour seals (Phoca vitulina) in rehabilitationAna Rubio‐García, Aldert Zomer, Ruoshui Guo, John W. A. Rossen, Jan H. van Zeijl, Jaap A. Wagenaar, Roosmarijn E. C. Luiken · 2023 · PLoS ONE
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- The Microbiome in Obesity, Diabetes, and NAFLD: What is Your Gut Telling Us?Leon Anton Adams, Mark Morrison · 2016 · Current Hepatology Reports
- Fermentation of Dietetic Fiber from Green Bean and Prickly Pear Shell by Pure and Mixture Culture of Lactobacillus acidophilus LA-5 and Bifidobacterium bifidum 450BY. N. Mora-Cura, Norma Paola Meléndez-Rentería, Mario Delgado-García, Juan Carlos Contreras‐Esquivel, Jesús A. Morlett-Chávez, Cristóbal N. Aguilar, Raúl Rodrı́guez-Herrera · 2017 · Current Microbiology
- El holobionte enfermo, el ejemplo de la esclerosis múltipleFederico Castillo-Álvarez, María Eugenia Marzo-Sola · 2018 · Medicina Clínica
- Comparison of Microbiota Variation in Korean Healthy Adolescents with Adults Suggests Notable Maturity DifferencesJoo-Wook Kim, Jin Sook Lee, Jung Ho Kim, Joo-Won Jeong, Dae Ho Lee, Seungyoon Nam · 2018 · OMICS A Journal of Integrative Biology
- Interaction of microbiome and immunity in tumorigenesis and clinical treatmentYue Yu, Wen Zhong · 2022 · Biomedicine & Pharmacotherapy
- Using the Human Gastrointestinal Microbiome to Personalize Nutrition Advice: Are Registered Dietitian Nutritionists Ready for the Opportunities and Challenges?Ruth Harvie, Ryan M. Chanyi, Jeremy P. Burton, Michael Schultz · 2016 · Journal of the Academy of Nutrition and Dietetics
- Microbial Forensics: A Present to Future Perspective on Genomic Targets, Bioinformatic Challenges, and ApplicationsRachel Shadoff, Mary Anne Panoyan, Nicole M.M. Novroski · 2022 · Forensic Genomics
- The microbiome and agingIsabel Abadías‐Granado, Javier Sánchez‐Bernal, Yolanda Gilaberte · 2022 · Plastic and Aesthetic Research
- Gut microbiome diversity measures for metabolic conditions: a systematic scoping reviewChatpol Samuthpongtorn, Tanawin Nopsopon, Krit Pongpirul · 2021 · medRxiv
- Intestinal biomarkers, microbiota composition, and genetic predisposition to inflammatory bowel disease as predictors of Parkinson's disease manifestationZhi Chai, Yuxia Ouyang, Anketse Debebe, Mellissa Picker, Wonjun Lee, Seth Fenton, Anouck Becker, Kerstin Augustin-Emmerichs, Andreas Schwiertz, Susanne Nicole Weber et al. · 2025 · Journal of Parkinson s Disease
- Microbiomics: An Approach to Community MicrobiologyPankaj Sharma, Vijaya Brahma, Anamika Sharma, Rama Kant Dubey, Gurupkar Singh Sidhu, Pawan Kumar Malhotra · 2015 · Springer eBooks
- Mixed group of Rhizobiales microbes in lung and blood of a patient with fatal pulmonary illness.Shyh‐Ching Lo, Guo-Chiuan Hung, Bingjie Li, Haiyan Lei, Tianwei Li, Kenjiro Nagamine, Shien Tsai, Mark Jay Zucker, Ludmilla Olesnicky · 2015 · PubMed Central
- Bioinformatic Analysis of Microbiome DataYinglin Xia, Jun Sun, Ding‐Geng Chen · 2018 · ICSA book series in statistics
- Next-Generation Sequencing: The Enabler and the Way AheadSonja Pavlović, Kristel Klaassen, Biljana Stanković, Maja Stojiljković, Branka Zukić · 2020 · Elsevier eBooks
- Fermentation revival in the classroom: investigating ancient human practices as CUREs for modern diseasesJennifer K Lyles, Monika W. Oli · 2020 · FEMS Microbiology Letters
- Bacterioplankton community assembly in migratory fish habitat: a case study of the southern East China SeaShizhan Zheng, Shouheng Zhou, Betina Lukwambe, Regan Nicholaus, Wen Yang, Zhongming Zheng · 2022 · Environmental Science and Pollution Research
- MG7: Configurable and scalable 16S metagenomics data analysisAlexey Alekhin, Evdokim Kovach, Marina Manrique, Pablo Pareja-Tobes, Eduardo Pareja, Raquel Tobes, Eduardo Pareja-Tobes · 2015 · bioRxiv (Cold Spring Harbor Laboratory)
- Fluorescence-based spectrometric and imaging methods and machine learning analyses for microbiota analysisJocelyn Reynolds, Jeong‐Yeol Yoon · 2025 · Microchimica Acta
- Integrated multi-omics identifies pathways governing interspecies interaction between A. fumigatus and K. pneumoniaeTamires A. Bitencourt, Filomena Nogueira, Sabrina Jenull, Trinh Phan-Canh, Michael Tscherner, Karl Kuchler, Thomas Lion · 2024 · Communications Biology
- Effect of dietary fibre on the gastrointestinal microbiota during critical illness: A scoping reviewAngaj Ghosh, Calum J. Walsh, Matthew J. Maiden, Timothy P. Stinear, Adam M. Deane · 2024 · World Journal of Critical Care Medicine
- GUT MICROBIOTA AND ITS IMPORTANCE FOR HUMAN HEALTHСафина Диляра Дамировна, Sayar R. Abdulkhakov, NAIL B. AMIROV · 2021 · The Bulletin of Contemporary Clinical Medicine
- Ophthalmic viscoelastics commonly used in cataract surgery: A microbiota investigationKourtney K. Dowler, Aida I. Vientós‐Plotts, Elizabeth A. Giuliano, Zachary L. McAdams, Rebecca A. Dorfmeyer, Carol R. Reinero, Aaron C. Ericsson · 2023 · Veterinary Ophthalmology
- Tumor-mediated microbiota alteration impairs synaptic tagging/capture in the hippocampal CA1 area via IL-1β productionYing Zhu, Yu Mei, Nimmi Baby, Huey Yee Teo, Zuhairah Binte Hanafi, Siti Nazihah Mohd Salleh, Sreedharan Sajikumar, Haiyan Liu · 2023 · Communications Biology
- Organism and Microbiome AnalysisAshleigh A. Halderman, Andrew P. Lane · 2017 · Otolaryngologic Clinics of North America
- Integrative Review of Gut Microbiota and Expression of Symptoms Associated With Neonatal Abstinence SyndromeStephanie D. Sealschott, Rita H. Pickler, Christine A. Fortney, Michael T. Bailey · 2020 · Nursing Research
- A Minireview on Gastrointestinal Microbiota and RadiosusceptibilityAihong Mao, Chao Sun, Takanori Katsube, Bing Wang · 2020 · Dose-Response
- The Lung Microbiome in Carcinogenesis and Immunotherapy TreatmentKathleen J. Kennedy, Karam Khaddour, Nithya Ramnath, Frank D. Weinberg · 2023 · The Cancer Journal
- Microbiome in Chronic Lung DiseasesManoj J. Mammen, Sanjay Sethi · 2017 · Barcelona Respiratory Network
- The Gut Microbiome Beyond the Bacteriome—The Neglected Role of Virome and Mycobiome in Health and DiseaseCharikleia Stefanaki · 2019 · Elsevier eBooks
- An Approach to Analyze Longitudinal Zero-Inflated Microbiome Count Data Using Two-Stage Mixed Effects ModelsJian Wang, Cielito C. Reyes‐Gibby, Sanjay S. Shete · 2020 · Statistics in Biosciences
- Infant Nasopharyngeal Microbiota Subphenotypes and Early Childhood Lung Function: Evidence from a Rural Ghanaian Pregnancy CohortKathryn Dubowski, Seyram Kaali, Darby W. Jack, Rebecca Kyerewaa Dwommoh Prah, José C. Clemente, Theresa Afia Serwaa Tawiah, Mohammed Nuhu Mujtaba, Louisa Fatahiya Iddrisu, Daniel Carrión, Dennis Gyasi Konadu et al. · 2021 · International Journal of Environmental Research and Public Health
- The evolutionary signal in metagenome phyletic profiles predicts many gene functionsVedrana Vidulin, Tomislav Šmuc, Sašo Džeroski, Fran Supek · 2018 · Microbiome
- TaxaCal: enhancing species-level profiling accuracy of 16S amplicon dataQingrong Shen, Xiaoqian Fan, Yangyang Sun, Hao Gao, Xiaoquan Su · 2025 · BMC Bioinformatics
- Applications of NGS in DNA AnalysisKelly M. Elkins, Hannah E. Berry, Kashiya R. Reese · 2022 · Springer eBooks
- Metagenomics vs metaproteomics: A review of their application on anaerobic digestion in biogas generationTze-Kang Lam · 2023 · Bioresource Technology Reports
- Uncovering the microbiome landscape in sashimi delicaciesCheng-Wei Ho, Peiying Chen, Yi-Ting Liao, Yen‐Fu Cheng, Han‐Hsing Tsou, Tsung‐Yun Liu, Kung‐Hao Liang · 2024 · Scientific Reports
- GEMimp: An Accurate and Robust Imputation Method for Microbiome Data Using Graph Embedding Neural NetworkZiwei Sun, Kai Song · 2024 · Journal of Molecular Biology
- Improved Detection of Culprit Pathogens by Bacterial DNA Sequencing Affects Antibiotic Management Decisions in Severe PneumoniaDaniel G. Dunlap, C. W. Marshall, Adam C. Fitch, Sarah F. Rapport, Vaughn S. Cooper, Bryan J. McVerry, Alison Morris, Georgios D. Kitsios · 2018 · American Journal of Case Reports
- Investigation of Adiposity Measures and Operational Taxonomic unit (OTU) Data Transformation Procedures in Stool Samples from a German Cohort Study Using Machine Learning AlgorithmsMartina Troll, Stefan Brandmaier, Sandra Reitmeier, Jonathan Adam, Sapna Sharma, Alice Sommer, Marie‐Abèle Bind, Klaus Neuhaus, Thomas Clavel, Jerzy Adamski et al. · 2020 · Microorganisms
- Leveraging random forest techniques for enhanced microbiological analysis: a machine learning approach to investigating microbial communities and their interactionsDaria Chrobak, Maciej Kołodzieczak, Polina Kozlovska, Adrianna Krzemińska, Tymoteusz I. Miller · 2023 · InterConf
- Carbohydrates for glycemic control: functional and microbiome aspectsFabiana Andréa Hoffmann Sardá, Eliana Bistriche Giuntini · 2023 · Current Opinion in Clinical Nutrition & Metabolic Care
- Interplay between Human Intestinal Microbiota and Gut-to-Brain Axis: Relationship with Autism Spectrum DisordersFrancisco Javier Díaz‐García, Saúl Flores‐Medina, Diana Mercedes Soriano-Becerril · 2019 · IntechOpen eBooks
- Orchestrating an Optimized Next-Generation Sequencing-Based Cloud Workflow for Robust Viral Identification during PandemicsHendrick Gao-Min Lim, Shih-Hsin Hsiao, Yuan-Chii Gladys Lee · 2021 · Biology
- Microbial characteristics of dental caries in HIV positive individualsDunstan Kalanzi, Harriet Mayanja‐Kizza, Damalie Nakanjako, Fred Semitala, Gerald Mboowa, Muhammad Mbabali, Edgar Kigozi, Fred Ashaba Katabazi, Ivan Sserwadda, David Patrick Kateete et al. · 2022 · Frontiers in Oral Health
- Metagenomics for Gut MicrobesRanjith N. Kumavath · 2018 · InTech eBooks
- Metabolomics and proteomics as tools to advance the understanding of exercise responses: The emerging role of gut microbiota in athlete health and performanceCaimari Antoni, Noemí Boqué, Canela Nuria, Pol Herrero, Mayneris-Perxachs Jordi, Lluı́s Arola, Francesc Puiggròs · 2019 · Elsevier eBooks
- Concept and Scientific Background of Personalized MedicineThomas R.M. Bieber · 2015 · Springer eBooks
- Relationship Between Gut Microbiota and Pancreatitis: A Systematic ReviewXu Zhang, Tcheudjeu Temagna Armel, Gaurav Tyagi · 2024 · Apollo Medicine
- A Review: Composition of Neonatal Meconium Microbiota and Its Role for Potential ProbioticDevi Oktaviyani, Raden Zulfa 'Alawiyyah, Putri Nusaiba, Amarila Malik · 2021 · Pharmaceutical Sciences and Research
- Gut Microbiome and Neurodegeneration: A Bioinformatics ApproachSwetanshu, Pratichi Singh · 2022 · Nutritional neurosciences
- Emerging Insights Into Microbiome Therapeutics for Urinary Tract Infections: A Narrative ReviewHoonhee Seo, Md Abdur Rahim, Indrajeet Barman, Mohammed Solayman Hossain, Hanieh Tajdozian, Fatemeh Ghorbanian, Md Sarower Hossen Shuvo, Jiho Choi, Sukyung Kim, Hee Jo Yang et al. · 2025 · Urogenital Tract Infection
- Bioprinting Using Aqueous Two-Phase SystemBrendan M. Leung, Joseph M. Labuz, Christopher Moraes, Shuichi Takayama · 2015 · Elsevier eBooks
- Metagenomics in Deciphering Microbial Communities Associated with Medicinal PlantsHira Amna Saleem, Hareem Mohsin, Azka Asif, Rabia Tanvir, Yasir Rehman · 2020 · Environmental and microbial biotechnology
- Comparison of enrichment methods for isolating Enterohemorrhagic Escherichia coli in kimchiMyeong-Kyo Jeong, Gun Woo Nam, Eun Jeong Heo, Mi-Gyeong Kim, Hyo‐Sun Kwak, Soon Han Kim, Soo Hwan Suh · 2022 · Journal of Microbiological Methods
- NoC Architectures as Enablers of Biological Discovery for Personalized and Precision MedicinePaul Bogdan, Turbo Majumder, Arvind Ramanathan, Yuankun Xue · 2015 · IEEE/ACM International Symposium on Networks-on-Chip (NOCS)
- Metagenomic Approaches for Investigating the Role of the Microbiome in Gut Health and Inflammatory DiseasesRodrigo Dias de Oliveira Carvalho, Fillipe Luiz Rosa Do Carmo, Sara Heloísa da Silva, Bárbara Fernandes Cordeiro, Aline B.M. Vaz, Enrico G. T. Gimenez, Luis Goulart, Aristóteles Goés‐Neto, Yves Le Loir, Gwénaël Jan et al. · 2018 · InTech eBooks
- Disease of the holobiont, the example of multiple sclerosisFederico Castillo-Álvarez, María Eugenia Marzo-Sola · 2019 · Medicina Clínica (English Edition)
- The Possible Role of Gut Microbiota and Microbial Translocation Profiling During Chemo-Free Treatment of Lymphoid MalignanciesValentina Zuccaro, Andrea Lombardi, Erika Asperges, Paolo Sacchi, P. Marone, Alessandra Gazzola, Luca Arcaini, Raffaele Bruno · 2019 · International Journal of Molecular Sciences
- Functional Metagenomics for Rhizospheric Soil in Agricultural SystemsEstefanía Garibay-Valdéz, Kadiya Calderón, Francisco Vargas‐Albores, Asunción Lago‐Lestón, Luis Rafael Martínez‐Córdova, Marcel Martínez‐Porchas · 2019 · Springer eBooks
- Microbiota - The Unseen Players in Adult Asthmatic AirwaysAyşe Bilge Öztürk, Ravi Ranjan, Asha Rani, Duygu Yazıcı, Sevim Bavbek · 2020 · Turkish Thoracic Journal
- The Gut Microbiome and Antimicrobial Resistance in Companion AnimalsAdriana Belas, Carolina S. Marques, Constança Pomba · 2020 · Springer eBooks
- Host trait prediction from human microbiome data for Colorectal CancerFaisal Bin Ashraf, Md. Shafiur Raihan Shafi, Md. Rayhan Kabir · 2020 · International Conference on Computer and Information Technology (ICCIT)
- Emerging clinical pharmacology topics in drug development and precision medicineQi Liu, Jack A. Gilbert, Hao‐Jie Zhu, Shiew Mei Huang, Elizabeth Kunkoski, Promi Das, Kimberly L. Bergman, Mary M. Buschmann, M. Khair ElZarrad · 2021 · Elsevier eBooks
- Deep ensemble learning over the microbial phylogenetic tree (DeepEn-Phy)Wodan Ling, Youran Qi, Xing Hua, Michael C. Wu · 2021 · IEEE International Conference on Bioinformatics and Biomedicine (BIBM)
- Microbial BiofilmsChaminda Jayampath Seneviratne, Neha Srivastava, Intekhab Islam, Patrick Allen · 2017 · CRC Press eBooks
- Invited Commentary: The Microbiome and Population Health—Considerations for Enhancing Study Design and Data Analysis in Observational and Interventional EpidemiologyRyan T. Demmer · 2018 · American Journal of Epidemiology
- The in vitro faecal evaluation of prebiotic effects of rooibos phenolic compounds on the gut microbiota of vervet monkeys (Chlorocebus pygerythrus)Noluxabiso Mangwana · 2020
- A flexible mixed-membership model for community and enterotype detection for microbiome dataAlice Giampino, Roberto Ascari, Sonia Migliorati · 2025 · Computational Statistics & Data Analysis
- Understanding the intricate interactions between microbiota and hostAiysha Siddiq Khan, Mohan Kamthan, Asghar Ali · 2025 · World Journal of Experimental Medicine
- Host and microbiota interaction in depression syndromeZeinab Mohsenipour, Pariya Keshavarz, Zahra Shahpasand Moghanloo · 2025 · Brain Disorders
- Assessing the Relationship Between Nitrate-Reducing Capacity of the Oral Microbiome and Systemic OutcomesCharlene Enhui Goh, Bruno Bohn, Ryan T. Demmer · 2021 · Methods in molecular biology
- Effects of Maternal Pre-Pregnancy BMI on Preterm Infant Microbiome and Fecal Fermentation Profile—A Preliminary Cohort StudyKristy L. Thomas, Amy E. Wahlquist, Dalton James, William Andrew Clark, Carol L. Wagner · 2025 · Nutrients
- Human Microbiome and Bacteriophages: Impacts on Health and DiseaseMuhammad Abdullah Sheraz, Hongyan Shi, Santasree Banerjee · 2025 · Current Clinical Microbiology Reports
- Porphyromonas somerae in urinary microbiome and its potential metabolic role in bladder cancerFilippo RUSSO, Speranza Esposito, Lorella Tripodi, Savio Domenico Pandolfo, Achille Aveta, Felice Amato, Carmela Nardelli, Ciro Imbimbo, Lucio Pastore, Giuseppe Castaldo · 2025 · Biochimica Clinica
- The microbiome and lung cancer: microbial effects on host immune responses and treatment outcomesAlexis Bailey, Kerstin K. Leuther, Lary A. Robinson · 2025 · Frontiers in Microbiomes
- The Use of Big Data in the Modern Biology: The Case of AgricultureJuan Campos‐Guillén, Vicente Daniel Moreno Andrade, Miguel Ángel Rico Rodríguez, Bernardo Bañuelos-Hernández, Armando Ceja-Bravo, Josué Roberto Bermeo‐Escalona, Andrés Cruz–Hernández · 2020 · Advances in intelligent systems and computing
- What we have learned to date from the omics approach to non-Alzheimer's dementiasMehmet Demırci, Özge Altıntaş Kadırhan · 2022 · Journal of Integrative Neuroscience
- Microbiome differences related to metformin intolerance among Black individuals with diabetes, a pilot cross-sectional studyMaya Fayfman, Andrew T. Gewirtz, Clara Delaroque, Gerardo Blanco, Seid Gibanica, Shanthi Srinivasan, Benoît Chassaing · 2023 · Metabolism Open
- Alterations in microbiome of COVID-19 patients and its impact on forensic investigationsTahir ul Gani Mir, Sakshi Manhas, Atif Khurshid Wani, Nahid Akhtar, Saurabh Shukla, Ajit Prakash · 2023 · Science & Justice
- Multi-omics in Gut MicrobiomeAnshu Mathuria, Anushika Chaudhary, Harshita Sharma, Indra Mani · 2024 · Springer eBooks
- Beyond the tumor: the gut microbiome as a key player in immunotherapy efficacy and resistanceYuemei Zhao, Weidong Liu, Yuehong Hu · 2025 · Naunyn-Schmiedeberg s Archives of Pharmacology
- A New Dirichlet‐Multinomial Mixture Regression Model for the Analysis of Microbiome DataRoberto Ascari, Sonia Migliorati, Andrea Ongaro · 2025 · Statistics in Medicine
- Microbiome of the upper airway focusing on chronic rhinosinusitis and allergic rhinitisSeung‐No Hong, Pona Park, Sang‐Heon Cho, Dong‐Young Kim · 2016 · Allergy Asthma & Respiratory Disease
- Microbiota and cancer (review of literature)Maria F. Vecherkovskaya, George V. Tetz, Victor Tetz · 2021 · The Scientific Notes of the Pavlov University
- The Importance of the Microbiome in the GutMark Morrison, Nida Murtaza, Nicholas Joseph Talley · 2023 · Springer eBooks
- Microbiome Data Mining for Microbial Interactions and RelationshipsXingpeng Jiang, Xiaohua Tony Hu · 2016 · Springer eBooks
- Microbiome: Current Status and Future ApplicationsRafael G. Ramos-Jiménez, Michael J. Morowitz · 2019 · Success in academic surgery
- Metagenomic Analysis and Their ApplicationArpita Ghosh, Aditya Metha, Mohammad A. Khan · 2025 · Elsevier eBooks
- The Microbiome as an Endocrine OrganGiulia Masetti · 2021 · Elsevier eBooks
- Symbiotic association of gut microbiome in health and diseases at ageingSarika S. Mane, Darshit Ashokkumar Patel, Pritee Chunarkar Patil · 2023 · Elsevier eBooks
- Understanding the impact of radical changes in diet and the gut microbiota on brain function and structure: rationale and design of the EMBRACE studyTair Ben‐Porat, Angela S. Alberga, Marie‐Claude Audet, Sylvie Belleville, Tamara R. Cohen, Pierre Y. Garneau, Kim Lavoie, Patrick Marion, Samira Mellah, Radu Pescarus et al. · 2023 · Surgery for Obesity and Related Diseases
- Microbiome and Human Health: Recent Insights and Future DirectionsAzza Moustafa Fahmy · 2024 · Premier journal of public health.
- The gastrointestinal microbiome in critical illness: A Clinician's guide to mechanisms, emerging tools, and therapeutic questionsAngaj Ghosh, Tess Evans, Calum J. Walsh, Matthew J. Maiden, Timothy P. Stinear, Adam M. Deane · 2025 · Critical Care and Resuscitation
- Explore impact of inhaled glucocorticoids/β₂-agonists on the oropharyngeal microbiota in asthma patients impact of GCs/β₂-agonists on oropharyngeal microbiota in asthmaYuliang Yang, Yanchao Liu, Runlu Wang, Jiawen Liu, Miaomiao Cui, Zheng Duan · 2025 · Medicine
- The Airway Microbiome in Chronic Obstructive Pulmonary Disease (COPD): A Guide for CliniciansWei Ling Yolanda Koo, Kai Xian Thng, Pei Yee Tiew, Sanjay Haresh Chotirmall · 2026 · British Journal of Hospital Medicine
- Gut Microbiota-Immune Interactions in Endometrial Cancer: Causal Mediation and Subtype-Specific MechanismsShuyang Yu, Wan Shu, Jiarui Zhang, Shuangshuang Cheng, Xiaoyu Shen, Guanxiao Chen, Tangansu Zhang, Kejun Dong, Jun Zhang, Piotr Laudański et al. · 2026 · International Journal of Women s Health