Comparing Apples and Oranges?: Next Generation Sequencing and Its Impact on Microbiome Analysis

Clooney, Adam G., Fouhy, Fiona, Sleator, Roy D., O’ Driscoll, Aisling, Stanton, Catherine, Cotter, Paul D., Claesson, Marcus J.·2016·PLOS ONE

DOI 10.1371/journal.pone.0148028

Cited by (272)

Items 101–200 of 272

Clinical implications of the microbiome in urinary tract diseases
Andreas Hiergeist, André Gessner · 2016 · Current Opinion in Urology
Metagenomics of microbial and viral life in terrestrial geothermal environments
Andrea Strazzulli, Salvatore Fusco, Beatrice Cobucci‐Ponzano, Marco Moracci, Patrizia Contursi · 2017 · Reviews in Environmental Science and Bio/Technology
A Comparative Evaluation of Tools to Predict Metabolite Profiles From Microbiome Sequencing Data
Xiaochen Yin, Tomer Altman, Erica M. Rutherford, Kiana West, Yonggan Wu, Jinlyung Choi, Paul L. Beck, Gilaad G. Kaplan, Karim Dabbagh, Todd Z. DeSantis et al. · 2020 · Frontiers in Microbiology
Multicenter evaluation of gut microbiome profiling by next-generation sequencing reveals major biases in partial-length metabarcoding approach
Hugo Roume, Stanislas Mondot, Adrien Saliou, Sophie Le Fresne, Joel M. Dore · 2023 · Scientific Reports
BIOCOM-PIPE: a new user-friendly metabarcoding pipeline for the characterization of microbial diversity from 16S, 18S and 23S rRNA gene amplicons
Christophe Djemiel, Samuel S. Dequiedt, Battle Karimi, Aurélien Cottin, Thibault Girier, Yassin El Djoudi, Patrick Wincker, Mélanie Lelièvre, Samuel Mondy, Nicolas Chemidlin Prévost‐Bouré et al. · 2020 · BMC Bioinformatics
Interventions on Microbiota: Where Do We Stand on a Gut–Brain Link in Autism? A Systematic Review
Margherita Prosperi, Elisa Santocchi, Letizia Guiducci, Jacopo Frinzi, Maria Aurora Morales, Raffaella Tancredi, Filippo Muratori, Sara Calderoni · 2022 · Nutrients
Challenges of next-generation sequencing targeting anaerobes
Georg Conrads, Mohamed M. H. Abdelbary · 2019 · Anaerobe
Skin microbiota: Friend or foe in pediatric skin health and skin disease
Andrea M. Schneider, Amanda M. Nelson · 2019 · Pediatric Dermatology
Phage community involvement in fermented beverages: an open door to technological advances?
Pierre Ledormand, Nathalie Desmasures, Marion Dalmasso · 2020 · Critical Reviews in Food Science and Nutrition
Lung microbiome of stable and exacerbated COPD patients in Tshwane, South Africa
Tanweer Goolam Mahomed, Remco P. H. Peters, Mushal Allam, Arshad Ismail, Senzo Mtshali, Akhter Goolam Mahomed, Veronica Ueckermann, Marleen Magdalena Kock, Marthie Magdaleen Ehlers · 2021 · Scientific Reports
Systematic Bias Introduced by Genomic DNA Template Dilution in 16S rRNA Gene-Targeted Microbiota Profiling in Human Stool Homogenates
Francesco Multinu, Sean C. Harrington, Jun Chen, Patricio Jeraldo, Stephen P. Johnson, Nicholas Chia, Marina R. S. Walther-Antonio · 2018 · mSphere
High-throughput DNA sequencing technologies for water and wastewater analysis
Alexander Wing Yip Chan, James Naphtali, Herb E Schellhorn · 2019 · Science Progress
Combined bacterial and fungal targeted amplicon sequencing of respiratory samples: Does the DNA extraction method matter?
Cécile Angebault, Mathilde Payen, Paul‐Louis Woerther, Christophe Rodriguez, Françoise Botterel · 2020 · PLoS ONE
Insights into study design and statistical analyses in translational microbiome studies
Jyoti Shankar · 2017 · Annals of Translational Medicine
Dietary α-lactalbumin alters energy balance, gut microbiota composition and intestinal nutrient transporter expression in high-fat diet-fed mice
Serena Boscaini, Raúl Cabrera‐Rubio, John Roger Speakman, Paul D. Cotter, John F. Cryan, Kanishka N. Nilaweera · 2019 · British Journal Of Nutrition
Fungal Microbiota of Sea Buckthorn Berries at Two Ripening Stages and Volatile Profiling of Potential Biocontrol Yeasts
Juliana Lukša, Iglė Vepštaitė‐Monstavičė, Violeta Apšegaitė, Laima Blažytė‐Čereškienė, Ramunė Stanevičienė, Živilė Strazdaitė‐Žielienė, Bazilė Ravoitytė, Dominykas Aleknavičius, Vincas Būda, Raimondas Mozūraitis et al. · 2020 · Microorganisms
The Clinical Relevance of the Microbiome in Hidradenitis Suppurativa: A Systematic Review
Dillon Mintoff, Isabella Borg, Nikolai Paul Pace · 2021 · Vaccines
Best Practices for Probiotic Research in Athletic and Physically Active Populations: Guidance for Future Randomized Controlled Trials
Mohr, Alex E., Pugh, Jamie, O'Sullivan, Orla, Black, Katherine, Townsend, Jeremy R., Pyne, David B., Wardenaar, Floris C., West, Nicholas P., Whisner, Corrie M., McFarland, Lynne V. · 2022 · Frontiers in Nutrition
In vitro metabolic capacity of carbohydrate degradation by intestinal microbiota of adults and pre-frail elderly
Ran An, Ellen Wilms, Madelon J. Logtenberg, Mara P. H. van Trijp, Henk Arie Schols, Ad Masclee, Hauke Smidt, Daisy M.A.E. Jonkers, Erwin G. Zoetendal · 2021 · ISME Communications
To rarefy or not to rarefy: Enhancing diversity analysis of microbial communities through next-generation sequencing and rarefying repeatedly
Ellen S. Cameron, Philip J. Schmidt, Benjamin J.-M. Tremblay, Monica B. Emelko, Kirsten M. Müller · 2020 · bioRxiv (Cold Spring Harbor Laboratory)
High content analysis of sea buckthorn, black chokeberry, red and white currants microbiota – A pilot study
Juliana Lukša, Iglė Vepštaitė‐Monstavičė, Vyacheslav Yurchenko, Saulius Serva, Elena Servienė · 2018 · Food Research International
Deep sequencing of biofilm microbiomes on dental composite materials
Georg Conrads, Laura Katharina Wendt, Franziska Hetrodt, Zhi-Luo Deng, Dietmar Helmut Pieper, Mohamed M. H. Abdelbary, Andree Barg, Irene Wagner‐Döbler, Christian Apel · 2019 · Journal of Oral Microbiology
Soil bacterial community in potato tuberosphere following repeated applications of a common scab suppressive antagonist
Lea H. Hiltunen, Oili Tarvainen, Jani Kelloniemi, Jaakko Tanskanen, Jouni Karhu, Jari P. T. Valkonen · 2021 · Applied Soil Ecology
Streptozotocin-induced hyperglycemia alters the cecal metabolome and exacerbates antibiotic-induced dysbiosis
Jenna I. Wurster, Rachel L. Peterson, Claire E. Brown, Swathi Penumutchu, Douglas V. Guzior, Kerri A. Neugebauer, William H. Sano, Manu M. Sebastian, Robert A. Quinn, Peter A. Belenky · 2021 · Cell Reports
The diagnostic potential and barriers of microbiome based therapeutics
Animesh Acharjee, Utpreksha Singh, Saptamita Paul Choudhury, Georgios V. Gkoutos · 2022 · Diagnosis
Endophytic bacterial communities of Jingbai Pear trees in north China analyzed with Illumina sequencing of 16S rDNA
Fei Ren, Wei Dong, Donghui Yan · 2018 · Archives of Microbiology
Is there a dysbiosis in individuals with a neurodevelopmental disorder compared to controls over the course of development? A systematic review
Lucie Jurek, Marine Sevil, Agathe Jay, Carmen M Schroder, Amaria Baghdadli, Geneviève Héry-Arnaud, Marie‐Maude Geoffray · 2020 · European Child & Adolescent Psychiatry
Water and microbial monitoring technologies towards the near future space exploration
Stefano Amalfitano, Caterina Levantesi, Diego Copetti, Fabrizio Stefani, Ilaria Locantore, V. Guarnieri, Cesare Lobascio, Francesca Bersani, Donatella Giacosa, Emmanouil Detsis et al. · 2020 · Water Research
Functionally diverse microbial communities show resilience in response to a record-breaking rain event
Jordan R. Walker, Alaina C. Woods, Mary K Pierce, Jamie L. Steichen, Antonietta S. Quigg, Karl Kaiser, Jessica Labonté · 2022 · ISME Communications
Description and comparison of the skin and ear canal microbiota of non-allergic and allergic German shepherd dogs using next generation sequencing
Neoklis Apostolopoulos, Stefanie P. Glaeser, Ruchi Bagwe, Stefan Janssen, Ursula K. Mayer, Christa Ewers, Peter Kämpfer, Reto Neiger, Nina Thom · 2021 · PLoS ONE
The urobiome, urinary tract infections, and the need for alternative therapeutics
Jennifer A. Jones, Craig P. Murphy, Roy D. Sleator, Eamonn P. Culligan · 2021 · Microbial Pathogenesis
Comparison of Database Search Methods for the Detection of Legionella pneumophila in Water Samples Using Metagenomic Analysis
Jednipit Borthong, Ryosuke Omori, Chihiro Sugimoto, Orasa Suthienkul, Ryo Nakao, Kimihito Ito · 2018 · Frontiers in Microbiology
Climate warming has direct and indirect effects on microbes associated with carbon cycling in northern lakes
Johanna C. Winder, Lucas P. P. Braga, McKenzie A. Kuhn, Lauren Thompson, David Olefeldt, Andrew J. Tanentzap · 2023 · Global Change Biology
Succession and determinants of the early life nasopharyngeal microbiota in a South African birth cohort
Shantelle Claassen-Weitz, Sugnet Gardner‐Lubbe, Yao Xia, Kilaza Samson Mwaikono, Stephanie Harris Mounaud, William C. Nierman, Lesley Workman, Heather Joy Zar, Mark Patrick Nicol · 2023 · Microbiome
HLA-A alleles including HLA-A29 affect the composition of the gut microbiome: a potential clue to the pathogenesis of birdshot retinochoroidopathy
Peter R. Sternes, Tammy M. Martin, Michael Paley, Sarah J. Diamond, Mark J. Asquith, Matthew Arthur Brown, James Todd Rosenbaum · 2020 · Scientific Reports
Metagenomics reveals novel microbial signatures of farm exposures in house dust
Ziyue Wang, Kathryn R. Dalton, Mi Kyeong Lee, Christine Gibson Parks, Laura E. Beane Freeman, Qiyun Zhu, Antonio González, Rob D. Knight, Shanshan Zhao, Alison A. Motsinger‐Reif et al. · 2023 · Frontiers in Microbiology
The Microbiota-Gut-Brain Axis in Mental Health and Medication Response: Parsing Directionality and Causality
Thomaz F. S. Bastiaanssen, John F. Cryan · 2021 · The International Journal of Neuropsychopharmacology
Seminal and testicular microbiome and male fertility
Pedro Brandão, Manuel Gonçalves-Henriques, Nathan Ichikawa Ceschin · 2021 · Porto Biomedical Journal
A common garden experiment with Porphyra umbilicalis (Rhodophyta) evaluates methods to study spatial differences in the macroalgal microbiome
Charlotte T. C. Quigley, Hilary G. Morrison, Inara Regina Wengratt Mendonça, Susan H. Brawley · 2018 · Journal of Phycology
The implementation of omics technologies in cancer microbiome research
Benjamin Harvey Mullish, Laura S Osborne, Julian Roberto Marchesi, Julie A. K. McDonald · 2018 · ecancermedicalscience
The Fungal and Bacterial Interface in the Respiratory Mycobiome with a Focus on Aspergillus spp.
Anna Rozaliyani, Budhi Antariksa, Fariz Nurwidya, Jamal Zaini, Findra Setianingrum, Firman Noor Hasan, Husna Nugrahapraja, Humaira Yusva, Heri Wibowo, Anom Bowolaksono et al. · 2023 · Life
High-throughput DNA extraction strategy for fecal microbiome studies
Heidi Isokääntä, Natalie Tomnikov, Sanja Vanhatalo, Eveliina Munukka, Pentti Huovinen, Antti Hakanen, Teemu Kallonen · 2024 · Microbiology Spectrum
PUMAA: A Platform for Accessible Microbiome Analysis in the Undergraduate Classroom
Keith Mitchell, Jiem R. Ronas, Christopher Dao, Amanda C. Freise, Serghei Mangul, Casey A. Shapiro, Jordan Moberg Parker · 2020 · Frontiers in Microbiology
Navigating Past Oceans: Comparing Metabarcoding and Metagenomics of Marine Ancient Sediment Environmental DNA
Luke E. Holman, Giulia Zampirolo, Richard Gyllencreutz, James David Scourse, Tobias Guldberg Frøslev, Christian Carøe, Shyam Gopalakrishnan, Mikkel Winther Pedersen, Kristine Bohmann · 2025 · Molecular Ecology Resources
Metagenomics: A New Direction in Ecology
M. V. Vecherskii, Mikhail V. Semenov, Alexandra A. Lisenkova, A. A. Stepan’kov · 2021 · Biology Bulletin
The association between the respiratory tract microbiome and clinical outcomes in patients with COPD
Suyun Yu, Huiping Zhang, Liping Wan, Min Feng Xue, Yunfeng Zhang, Xiwen Gao · 2022 · Microbiological Research
Case–Control Study Examining the Composition of the Gut Microbiome in Individuals With and Without Immune-Mediated Dry Eye
Courtney Frances Goodman, Thuy A. Doan, Divy Mehra, Jason D. Betz, Elyana V. T. Locatelli, Simran Mangwani‐Mordani, Karthik Kalahasty, Mireya Hernandez, Jodi C. Hwang, Anat Galor · 2022 · Cornea
Development of a roadmap for action on the application of Omics and associated Bioinformatics Approaches in Risk Assessment
Santiago Radío, Marco Di Marsico, Costanza Bersani, Roberto Malinverni, Josep Casacuberta, Chiara Corpetti, Riccardo Aiese Cigliano, Walter Sanseverino · 2024 · EFSA Supporting Publications
Exploring the archaeome: detection of archaeal signatures in the human body
Manuela R. Pausan, Cintia Csorba, Georg Singer, Holger Till, Veronika Schöpf, Elisabeth Santigli, Barbara Klug, Christoph Högenauer, Marcus Blohs, Christine Moissl-Eichinger · 2018 · bioRxiv (Cold Spring Harbor Laboratory)
The diagnostic efficacy of metagenomic next-generation sequencing (mNGS) in pathogen identification of pediatric pneumonia using bronchoalveolar lavage fluid (BALF): A systematic review and meta-analysis
Zhifang Ruan, Hongjin Shi, Lingdan Chang, Jinsong Zhang, Mengli Fu, Rui P. Li, Dan Zeng, Yuan Yang, Ran Li, Ai Li et al. · 2025 · Microbial Pathogenesis
Gut microbiota in cats with inflammatory bowel disease and low-grade intestinal T-cell lymphoma
Amandine Drut, Héla Mkaouar, Aïcha Kriaa, Vincent Mariaule, Nizar Akermi, Tristan Méric, Odile Sénécat, Emmanuelle Maguin, Juan L. Hernandez, Moez Rhimi · 2024 · Frontiers in Microbiology
Healthy Patients Are Not the Best Controls for Microbiome-Based Clinical Studies: Example of Sjögren’s Syndrome in a Systematic Review
E. Doare, Geneviève Héry-Arnaud, Valérie Devauchelle‐Pensec, Guillermo Carvajal Alegria · 2021 · Frontiers in Immunology
Microbiome analysis, the immune response and transplantation in the era of next generation sequencing
Siva Kanangat, Ina Skaljic · 2021 · Human Immunology
A comparison of approaches to scaffolding multiple regions along the 16S rRNA gene for improved resolution
Justine W. Debelius, Michael Scott Robeson, Luisa Warchavchik Hugerth, Fredrik Boulund, Weimin Ye, Lars G. Engstrand · 2021 · bioRxiv (Cold Spring Harbor Laboratory)
The Gut Mycobiome for Precision Medicine
Islam El Jaddaoui, Sofia Sehli, Najib Al Idrissi, Youssef Bakri, Lahcen Belyamani, Hassan Ghazal · 2025 · Journal of Fungi
Impact of the Chromatin Remodeling Factor CHD1 on Gut Microbiome Composition of Drosophila melanogaster
Sebald Johanna, Michaela Willi, Ines Schoberleitner, Anne Krogsdam, Dorothea Orth‐Höller, Zlatko Trajanoski, Alexandra Lusser · 2016 · PLoS ONE
Impact des nouveaux outils de métagénomique sur notre connaissance du microbiote intestinal et de son rôle en santé humaine
Hervé M. Blottière, Joel M. Dore · 2016 · médecine/sciences
Comparative Genomic Analysis of Soil Dwelling Bacteria Utilizing a Combinational Codon Usage and Molecular Phylogenetic Approach Accentuating on Key Housekeeping Genes
Jayanti Saha, Barnan Kumar Saha, Monalisha Pal Sarkar, Vivek Roy, Parimal Mandal, Ayon Pal · 2019 · Frontiers in Microbiology
Environmental microbiology: Perspectives for legal and occupational medicine
Saverio Giampaoli, Federica Alessandrini, Giovanni Vanni Frajese, Giovanni Guglielmi, Adriano Tagliabracci, Andrea Berti · 2018 · Legal Medicine
Gut-microbiota-based ensemble model predicts prognosis of pediatric inflammatory bowel disease
Sung Min Ha, Kihyun Lee, Gun-Ha Kim, Jakub Hurych, Ondřej Cinek, Jung Ok Shim · 2024 · iScience
Impact of sample processing on human airways microbial metagenomes
Lutz Wiehlmann, Katarzyna Pienkowska, Silke Hedtfeld, Marie Dorda, Burkhard Tümmler · 2017 · Journal of Biotechnology
Natural history bycatch: a pipeline for identifying metagenomic sequences in RADseq data
Iris A. Holmes, Alison R. Davis Rabosky · 2018 · PeerJ
Unveiling the impact of 16S rRNA gene intergenomic variation on primer design and gut microbiome profiling
Sirinthorn Sunthornthummas, Rujipat Wasitthankasem, Pimonwan Phokhaphan, Nirinya Sudtachat, Alisa Wilantho, Chumpol Ngamphiw, Wanwisa Chareanchim, Sissades Tongsima · 2025 · Frontiers in Microbiology
Comparison of the performance of MiSeq and NovaSeq in oral microbiome study
Hyejung Han, Hyo‐Jung Lee, Keun‐Suh Kim, Jin Chung, Hee Sam Na · 2024 · Journal of Oral Microbiology
Occurrence of potentially pathogenic bacteria on shared bicycles
Chaonan Sun, Tao Yuan, Ling Chen, Zhen Xie, Zhu Shen · 2019 · International Journal of Hygiene and Environmental Health
Characterizing the Native Microbiome Using Next-Generation Sequencing of Bilateral ‘Aseptic’ Knees
Tracy M. Borsinger, Michael T. Torchia, Bethany S. Malskis, Benjamin A. Levy, Paul M. Werth, Wayne E. Moschetti · 2023 · The Journal of Arthroplasty
Methods of Assessment of Microbial Diversity in Natural Environments
Anwesha Ghosh, Punyasloke Bhadury · 2018 · Elsevier eBooks
Simultaneous analysis of seven 16S rRNA hypervariable gene regions increases efficiency in marine bacterial diversity detection
Κλεοπάτρα Λεοντίδου, Ion L. Abad‐Recio, Verena Rubel, Sabine Filker, Martin Däumer, Alexander Thielen, Anders Lanzén, Thorsten Stoeck · 2023 · Environmental Microbiology
A review of the venom microbiome and its utility in ecology and evolution including future directions for emerging research
Marina Estella De León, Eduardo Gonçalves Paterson Fox, Sara J. Dunaj, Ronald A. Jenner, Carl N. Keiser, Jason Macrander, Samantha A. Nixon, Clarissa J. Nobile, Daniel Petras, Eduardo Rodríguez‐Román et al. · 2025 · Symbiosis
Interactions between human norovirus and intestinal microbiota/microbes: A scoping review
Yaqi Yang, Ran An, Chenang Lyu, Dapeng Wang · 2023 · Food Microbiology
Dysbiosis in intestinal microbiome linked to fecal blood determined by direct hybridization
Concetta Cafiero, Agnese Re, Salvatore Pisconti, Marina Trombetti, Mariarita Perri, Manuela Colosimo, Gerardo D’Amato, Luca Gallelli, Roberto Cannataro, Clelia Molinario et al. · 2020 · 3 Biotech
Evaluating whole-genome sequencing quality metrics for enteric pathogen outbreaks
Darlene Wagner, Heather A. Carleton, Eija Trees, Lee S. Katz · 2021 · PeerJ
Evaluating Methods of Preserving Aquatic Invertebrates for Microbiome Analysis
Stephanie N. Vaughn, Colin R. Jackson · 2022 · Microorganisms
Microbiomes from feces vs. gut in aquatic vertebrates: distinct community compositions between substrates and preservation methods
Sten Anslan, Huan Li, Sven Künzel, Miguel Vences · 2019 · bioRxiv (Cold Spring Harbor Laboratory)
Disinfectant residuals in drinking water systems select for mycobacterial populations with intrinsic antimicrobial resistance
Maria Sevillano, Zihan Dai, Szymon Calus, Q. Melina Bautista-de los Santos, A. Murat Eren, Paul W. J. J. van der Wielen, Umer Zeeshan Ijaz, Ameet J. Pinto · 2019 · bioRxiv (Cold Spring Harbor Laboratory)
Exploring the Gut Microbiome Alteration of the European Hare (Lepus europaeus) after Short-Term Diet Modifications
Anna Padula, Marina Bambi, Chiara Mengoni, Claudia Greco, Nadia Mucci, Ilaria Greco, Alberto Masoni, Sara Del Duca, Giovanni Bacci, Giacomo Santini et al. · 2021 · Biology
Optimization of a DNA extraction protocol for improving bacterial and fungal classification based on Nanopore sequencing
May Soe Thu, Vorthon Sawaswong, Prangwalai Chanchaem, Pavit Klomkliew, Barry James Campbell, Nattiya Hirankarn, Joanne L. Fothergill, Sunchai Payungporn · 2024 · Access Microbiology
TangNaiKang, herbal formulation, alleviates obesity in diabetic SHR/cp rats through modulation of gut microbiota and related metabolic functions
Peng Tian, Lili Wu, Maya Kudo, Misa Hayashi, Lingling Qin, Ming Gao, Anlong Xu, Tonghua Liu · 2022 · Pharmaceutical Biology
Insight into the potential of algorithms using AI technology as in vitro diagnostics utilizing microbial extracellular vesicles
Jinho Yang · 2024 · Molecular and Cellular Probes
Integrity, standards, and QC-related issues with big data in pre-clinical drug discovery
John F. Brothers, Matthew H. Ung, Renan Escalante-Chong, Jermaine Ross, Jenny Zhang, Yoonjeong Cha, Andrew C. Lysaght, Jason M. Funt, Rebecca L. Kusko · 2018 · Biochemical Pharmacology
Technical pitfalls that bias comparative microbial community analyses of aquatic disease Ian Hewson*
Ian Hewson · 2019 · Diseases of Aquatic Organisms
Are There Differences in Gut Microbiome in Patients with Type 2 Diabetes Treated by Metformin or Metformin and Insulin?
Sylwia Dzięgielewska-Gęsiak, Edyta Fatyga, Magdalena Piłot, Aleksander Wierzgoń, Małgorzata Muc‐Wierzgoń · 2022 · Diabetes Metabolic Syndrome and Obesity
Human umbilical cord‑derived mesenchymal stem cells ameliorate the enteropathy of food allergies in mice
Nannan Yan, Jie Xu, Chuanxiang Zhao, Yi Wu, Fengwei Gao, Ci Li, Wenhui Zhou, Tengfei Xiao, Xiaoming Zhou, Qixiang Shao et al. · 2018 · Experimental and Therapeutic Medicine
Combining vertebrate mitochondrial 12S rRNA gene sequencing and shotgun metagenomic sequencing to investigate the diet of the leopard cat (Prionailurus bengalensis) in Korea
Cheolwoon Woo, P. Kumari, K. Eo, Woo-shin Lee, J. Kimura, N. Yamamoto · 2023 · PLoS ONE
Comparative evaluation of specimen type and processing conditions for studying oyster microbiomes
Esam Almuhaideb, Nur A. Hasan, Christopher J. Grim, Shah Manzur Rashed, Salina Parveen · 2025 · Frontiers in Microbiology
Deciphering the community structure and the functional potential of a hypersaline marsh microbial mat community
Christina Pavloudi, Haris Zafeiropoulos · 2022 · FEMS Microbiology Ecology
Mock microbial community meta‐analysis using different trimming of amplicon read lengths
Diana Haider, Michael Hall, Julie LaRoche, Robert Gerald Beiko · 2023 · Environmental Microbiology
Bayesian Sparse Multivariate Regression with Asymmetric Nonlocal Priors for Microbiome Data Analysis
Kurtis Shuler, Marilou P. Sison-Mangus, Juhee Lee · 2019 · Bayesian Analysis
Reproducibility in Biomedical Research
Kevin Mullane, Michael J. Curtis, Michael J. Williams · 2017 · Elsevier eBooks
PUMA: A tool for processing 16S rRNA taxonomy data for analysis and visualization
Keith Mitchell, Christopher Dao, Amanda C. Freise, Serghei Mangul, Jordan Moberg Parker · 2018 · bioRxiv (Cold Spring Harbor Laboratory)
Metabolic Disorders and Inflammatory Bowel Diseases: Unraveling Shared Pathways and Clinical Interactions
Fotios S. Fousekis, Afroditi Lamprou, Maria Ioannis Saridi, Ioanna Nefeli Mastorogianni, Konstantinos C. Mpakogiannis, Georgios D. Lianos, Konstantinos H. Katsanos · 2026 · Metabolites
A Narrative Review of the Putative Etiologic Role and Diagnostic Utility of the Cervicovaginal Microbiome in Human Papillomavirus‐Associated Cervical Carcinogenesis
Margaret Logel, Parker Tope, Mariam El‐Zein, Emmanuel González, Eduardo Luis Franco · 2024 · Journal of Medical Virology
Bioinformatics for Biomonitoring: Species Detection and Diversity Estimates Across Next-Generation Sequencing Platforms
Isaac Eckert, Joanne E. Littlefair, Guang Zhang, Frédéric J. J. Chain, Teresa J. Crease, Melania E. Cristescu · 2018 · Advances in ecological research/Advances in Ecological Research
IPCO: Inference of Pathways from Co-variance analysis
Mrinmoy Das, Tarini Shankar Ghosh, Ian B. Jeffery · 2020 · BMC Bioinformatics
Reproductive microbiota in humans: characterization and role in infertility
Rebecca K Poole, Dallas R Soffa, Kyle Hickman, Olivia J Ognibene, Matthew D Stuehr · 2025 · Systems Biology in Reproductive Medicine
Friends and Foes: Phyto-Microbial Interactions in Molecular Perspective
Shyam Solanki, Gazala Ameen, Debankur Sanyal, Shalu Jain, Ammar Elakhdar, Shwetank Lall, Kishore Chittem, Leah Brueggeman, Ajay Kumar, Robert Saxon Brueggeman · 2020 · Environmental and microbial biotechnology
Next-generation sequencing technology for the diagnosis of microbial infections in hard-to-heal wounds
Namitha Nayak, Kapaettu Satyamoorthy, Thokur Sreepathy Murali · 2023 · Journal of Wound Care
ImmunoAdept – bringing blood microbiome profiling to the clinical practice
Paul Walsh, Bruno Gabriel Nascimento Andrade, Cintia Cristina Palu, Boyang Jason Wu, Brendan Lawlor, Brian Kelly, Matthias Hemmje, Michael Krämer · 2018 · IEEE International Conference on Bioinformatics and Biomedicine (BIBM)
Launching of the Anaemia Research Peruvian Cohort (ARPEC): a multicentre birth cohort project to explore the iron adaptive homeostasis, infant growth and development in three Peruvian regions
Doreen Montag, Carlos Delgado, Consuelo Quispe, David W. Wareham, V. Gallo, José Sánchez-Choy, Víctor Sánchez, Ruth Anaya, Elaine C. Flores, Lorena Roca et al. · 2021 · BMJ Open
Skin Microbiota Content in Children and its Effect on Acne Pathogenesis
Larisa Sergeevna Kruglova, Natalia V. Gryazeva, Тамразова Анаит Вардановна · 2021 · Вопросы современной педиатрии