The human microbiome in clinical translation: from bench to bedside

Structure, function and diversity of the healthy human microbiome

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A human gut microbial gene catalogue established by metagenomic sequencing

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Hallmarks of Cancer: New Dimensions

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Human gut microbiome viewed across age and geography

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Delivery mode shapes the acquisition and structure of the initial microbiota across multiple body habitats in newborns

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Interaction between microbiota and immunity in health and disease

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Commensal <i>Bifidobacterium</i> promotes antitumor immunity and facilitates anti–PD-L1 efficacy

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Anticancer immunotherapy by CTLA-4 blockade relies on the gut microbiota

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Microbiota in health and diseases

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Multi-omics of the gut microbial ecosystem in inflammatory bowel diseases

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The skin microbiome

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Using Big Data to Emulate a Target Trial When a Randomized Trial Is Not Available: Table 1.

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Environment dominates over host genetics in shaping human gut microbiota

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The human skin microbiome

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Current understanding of the human microbiome

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The gut-brain axis: interactions between enteric microbiota, central and enteric nervous systems.

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Gut microbiome and health: mechanistic insights

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Factors influencing the composition of the intestinal microbiota in early infancy

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The Oral Microbiota: Dynamic Communities and Host Interactions

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Artificial sweeteners induce glucose intolerance by altering the gut microbiota

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Temporal development of the gut microbiome in early childhood from the TEDDY study

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The first microbial colonizers of the human gut: composition, activities, and health implications of the infant gut microbiota

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The healthy human microbiome

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Altering the intestinal microbiota during a critical developmental window has lasting metabolic consequences

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Fecal microbiota transplant overcomes resistance to anti–PD-1 therapy in melanoma patients

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Fecal microbiota transplant promotes response in immunotherapy-refractory melanoma patients

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Gut microbiota in cardiovascular health and disease

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Extensive Unexplored Human Microbiome Diversity Revealed by Over 150,000 Genomes from Metagenomes Spanning Age, Geography, and Lifestyle

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Microbiota Transfer Therapy Alters Gut Ecosystem and Improves Gastrointestinal and Autism Symptoms: An Open-Label Study

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The microbiome in early life: Implications for health outcomes

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Microbiota–gut–brain axis and its therapeutic applications in neurodegenerative diseases

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Oral microbiome: Unveiling the fundamentals

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MOFA+: a statistical framework for comprehensive integration of multi-modal single-cell data

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Stunted microbiota and opportunistic pathogen colonization in caesarean-section birth

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DIABLO: an integrative approach for identifying key molecular drivers from multi-omics assays

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Dietary fiber and probiotics influence the gut microbiome and melanoma immunotherapy response

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The role of short-chain fatty acids in the interplay between gut microbiota and diet in cardio-metabolic health

Nogal, A., Valdes, A. M., & Menni, C. (2021) · Gut Microbes · doi:10.1080/19490976.2021.1897212 · Cited by 917 · see citing works

Antibiotics as Major Disruptors of Gut Microbiota

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Dysbiosis-Induced Secondary Bile Acid Deficiency Promotes Intestinal Inflammation

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Bifidobacteria-mediated immune system imprinting early in life

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US immigration westernizes the human gut microbiome

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Oral microbiomes: more and more importance in oral cavity and whole body

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Human gut microbiota in health and disease: Unveiling the relationship

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The oral microbiome: Role of key organisms and complex networks in oral health and disease

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Long-term benefit of microbiota transfer therapy on autism symptoms and gut microbiota

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Microbiome-wide association studies link dynamic microbial consortia to disease

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A roadmap to increase diversity in genomic studies

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Intestinal Akkermansia muciniphila predicts clinical response to PD-1 blockade in patients with advanced non-small-cell lung cancer

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Oral microbiota in human systematic diseases

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Growing up in a bubble: using germ-free animals to assess the influence of the gut microbiota on brain and behavior

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Assessment of variation in microbial community amplicon sequencing by the Microbiome Quality Control (MBQC) project consortium

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Combined effects of host genetics and diet on human gut microbiota and incident disease in a single population cohort

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SER-109, an Oral Microbiome Therapy for Recurrent <i>Clostridioides difficile</i> Infection

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Targeted suppression of human IBD-associated gut microbiota commensals by phage consortia for treatment of intestinal inflammation

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The respiratory tract microbiome and lung inflammation: a two-way street.

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The dynamic lung microbiome in health and disease

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Gut microbiota and the neuroendocrine system

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Persistent microbiome alterations modulate the rate of post-dieting weight regain

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Meta-analysis of effects of exclusive breastfeeding on infant gut microbiota across populations

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Lung microbiome: new insights into the pathogenesis of respiratory diseases

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Cross-cohort gut microbiome associations with immune checkpoint inhibitor response in advanced melanoma

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Impact of delivery mode-associated gut microbiota dynamics on health in the first year of life

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Gut microbiome function predicts response to anti-integrin biologic therapy in Inflammatory Bowel diseases

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Pathobionts of the gastrointestinal microbiota and inflammatory disease

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Next-generation sequencing: insights to advance clinical investigations of the microbiome

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Vaginal microbiome transplantation in women with intractable bacterial vaginosis

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Data sharing practices and data availability upon request differ across scientific disciplines

Tedersoo, L., Küngas, R., Oras, E., Köster, K., Eenmaa, H., Leijen, Ä., Pedaste, M., Raju, M., Сергеевна, А. А., Lukner, H., et al. (2021) · Scientific Data · doi:10.1038/s41597-021-00981-0 · Cited by 397 · see citing works

Racial/ethnic disparities in genomic sequencing

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Effects of Infant Formula With Human Milk Oligosaccharides on Growth and Morbidity

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Microbiota and the gut-brain-axis: Implications for new therapeutic design in the CNS

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Development of a human skin commensal microbe for bacteriotherapy of atopic dermatitis and use in a phase 1 randomized clinical trial

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The gut microbiota-immune-brain axis: therapeutic implications

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Probiotic<i>Lactobacillus</i>dose required to restore and maintain a normal vaginal flora

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Microbiome therapeutics — Advances and challenges

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The intestinal neuro-immune axis: crosstalk between neurons, immune cells, and microbes

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IL-1-driven stromal–neutrophil interactions define a subset of patients with inflammatory bowel disease that does not respond to therapies

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A systematic framework for understanding the microbiome in human health and disease: from basic principles to clinical translation

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The gut microbiota and inflammatory noncommunicable diseases: Associations and potentials for gut microbiota therapies

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Resistant starch intake facilitates weight loss in humans by reshaping the gut microbiota

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Oral Microbiome Geography: Micron-Scale Habitat and Niche

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Effect of fecal microbiota transplant on symptoms of psychiatric disorders: a systematic review

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A comprehensive review of probiotics and human health-current prospective and applications

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Microbiome-based interventions to modulate gut ecology and the immune system

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Dysbiosis and extraintestinal cancers

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Systematic characterization of multi-omics landscape between gut microbial metabolites and GPCRome in Alzheimer’s disease

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Baseline Gut Metagenomic Functional Gene Signature Associated with Variable Weight Loss Responses following a Healthy Lifestyle Intervention in Humans

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Multiomic profiling of cutaneous leishmaniasis infections reveals microbiota-driven mechanisms underlying disease severity

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Network-based integration of multi-omics data for clinical outcome prediction in neuroblastoma

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A population-scale analysis of 36 gut microbiome studies reveals universal species signatures for common diseases

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Modulating the human gut microbiome and health markers through kombucha consumption: a controlled clinical study

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Advancing Equity and Inclusion in Microbiome Research and Training

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Elucidating human gut microbiota interactions that robustly inhibit diverse Clostridioides difficile strains across different nutrient landscapes

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BIC: a database for the transcriptional landscape of bacteria in cancer

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Compositionality, sparsity, spurious heterogeneity, and other data-driven challenges for machine learning algorithms within plant microbiome studies

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Neuroendocrine gut–brain signaling in obesity

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Global compositional and functional states of the human gut microbiome in health and diseasePreprint

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From bench to bedside: an interdisciplinary journey through the gut-lung axis with insights into lung cancer and immunotherapy

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Integrative systems biology approaches for analyzing microbiome dysbiosis and species interactions

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Oncolytic virotherapy and tumor microenvironment modulation

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A New Phenotype in Candida -Epithelial Cell Interaction Distinguishes Colonization- versus Vulvovaginal Candidiasis-Associated Strains

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Influence of gut and lung dysbiosis on lung cancer progression and their modulation as promising therapeutic targets: a comprehensive review

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Effects and microbiota changes following oral lyophilized fecal microbiota transplantation in children with autism spectrum disorder

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From microbes to mind: germ-free models in neuropsychiatric research

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In silico Analyses of Immune System Protein Interactome Network, Single-Cell RNA Sequencing of Human Tissues, and Artificial Neural Networks Reveal Potential Therapeutic Targets for Drug Repurposing Against COVID-19

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The metabolomic signature of weight loss and remission in the Diabetes Remission Clinical Trial (DiRECT)

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Human milk oligosaccharides and the infant gut microbiome from an eco-evolutionary perspective

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Free fatty acid receptor 4 modulates dietary sugar preference via the gut microbiota

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Neural innervation in adipose tissue, gut, pancreas, and liver

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The pharmacoepigenetic paradigm in cancer treatment

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Heterogeneity of the group B streptococcal type <scp>VII</scp> secretion system and influence on colonization of the female genital tract

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A novel graph theoretical approach for modeling microbiomes and inferring microbial ecological relationships

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Combination strategies of gut microbiota in cancer therapy through metabolic reprogramming and immune remodeling

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Prenatal antibiotics reduce breast milk IgA and induce dysbiosis in mouse offspring, increasing neonatal susceptibility to bacterial sepsis

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A genome catalog of the early-life human skin microbiome

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Nutrigenomics meets multi-omics: integrating genetic, metabolic, and microbiome data for personalized nutrition strategies

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Gut microbiome–driven colorectal cancer via immune, metabolic, neural, and endocrine axes reprogramming

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The gut–brain–circadian axis in anxiety and depression: a critical review

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Microbiome influence in gastric cancer progression and therapeutic strategies

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Deciphering organotropism reveals therapeutic targets in metastasis

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Chronobiome medicine: circadian regulation of host–microbiota crosstalk in systemic physiology

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Neurodegeneration rewires the tumor microenvironment via the neuro–immune–cancer axis

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Reprogramming human health through the microbiome and precision medicine

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Next‐Generation Immune Checkpoints and Tumor Microenvironment Modulation in Cancer Immunotherapy

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Reprogramming prostate cancer through the microbiome

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Biohacking the human gut microbiome for precision health and therapeutic innovation

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Decoding the microbial blueprint of pancreatic cancer

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Integrating microbiome insights into cervical cancer

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Live biotherapeutics in the clinic: Regulatory pathways, market dynamics, and future trends

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Microbiota-Derived Metabolites in the Epigenetic Regulation of Redox Homeostasis

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The Seven Methods for the Evaluation of Nutritional Status—ABCDEFG: Narrative Review

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Remodeling mechanisms and intervention strategies of the oral mucosal immune barrier

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Employing bacteriophages to combat cancer

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The human microbiome at translational crossroads: an ecological and causal perspective

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Gut Microbiome–Sleep Crosstalk: Mechanistic Pathways, Dysbiosis Signatures, and Microbiome‐Based Interventions

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Circadian rhythm modulation in metabolic disease: targeting clock genes for obesity and insulin resistance

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Gut microbiota-derived metabolites in cardiovascular disease: mechanisms, disease-specific roles, and translational opportunities

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Effects of Lactobacillus plantarum, Lactobacillus fermentum, and Lactococcus lactis supplementation on lipid profiles: a systematic review and meta-analysis

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Gut microbiome–mediated bioactive ingredients and health benefits of medicinal and edible fermented products: A comprehensive review

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Microbial Influence on Immune Checkpoint Inhibitor Therapy in Non-Small Cell Carcinoma: The Gut–Lung-Immune Axis

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Vaccination-enabled immune readiness for checkpoint blockade

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From Gut to Genome: Systems‐Level Microbiome Signaling in Inter‐Organ Communication in Health and Disease

Li, L., Han, Y., Yu, M., Yang, H., Tareen, A. M., Arain, M. A., Wang, Y., & Yin, S. (2026) · Comprehensive physiology · doi:10.1002/cph4.70233 · Cited by 1 · see citing works

Microbiota–Mediator–Host Signaling Networks in Metabolic Syndrome: From Mechanistic Insights to Therapeutic Targeting

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Miscarriage and the Microbiome: Host Genetics, Immunity, and the Reproductive Tract Ecosystem

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Microbiome-derived bioactive molecules regulate host signaling and therapeutic responses in cancer and metabolic diseases

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Can Molecular Pathology Drive Progress in Microbiome Understanding? Lessons from Spousal and Household Studies

Plećaš, D., & Polašek, O. (2026) · Journal of Molecular Pathology · doi:10.3390/jmp7010004

Microbiome-Mediated Pharmacognosy: A New Paradigm to Drug Discovery

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Gut microbiome modulation in allergic rhinitis: from current evidence to emerging therapies

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The Role of Gut Microbiota in Type 2 Diabetes: From Dysbiosis to Therapeutic Opportunities—A literature review

Szkamruk, Z., Cielecka, J., Walędziak, M., & Różańska-Walędziak, A. M. (2026) · Bratislavské lekárske listy/Bratislava medical journal · doi:10.1007/s44411-026-00596-0

A Probiotic Formula Reshapes Oral-Gut Microbiota, Attenuates the Gut Resistome, and Supports Lean Growth in Preschoolers: A Multi-Omics TrialPreprint

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Comment on “Conjunctival microbiota in retinal diseases requiring anti-VEGF therapy: Age-related macular degeneration, diabetic retinopathy, and retinal vein occlusion”

Charan, L. S., Kumar, N., & Kumari, S. (2026) · European Journal of Ophthalmology · doi:10.1177/11206721261445275

A Probiotic Formula Reshapes Oral-Gut Microbiota, Attenuates the Gut Resistome, and Supports Lean Growth in Preschoolers: A Multi-Omics TrialPreprint

Zhang, M., Han, X., Liu, Z., Liu, K., Zhou, X., Ye, X., Yang, Z., Ma, Y., Kwok, L., Duan, Y., et al. (2026) · Research Square · doi:10.21203/rs.3.rs-9483549/v2

Early-life gastrointestinal inflammation and the developing brain: Unravelling the pathways to long-term cognitive dysfunction

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The Nasopharyngeal Microbiome: A Narrative Review of the Hidden Regulator of Ear, Nose, and Throat (ENT) Inflammations

Panagiotidi, K., Markidis, A., Karamatzanis, I., Almomani, M., Omirou, R., & Kosmidou, P. (2026) · Cureus · doi:10.7759/cureus.109921

Immunotherapy 3.0: Breakthroughs Steering the Next Generation of Cancer Control

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AI in Drug-Microbiota Research

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Gut-Brain Neuroomics and Smart Microbiomes

Britil, I., Moummou, H., & El‐Mansoury, B. (2026) · Advances in computational intelligence and robotics book series · doi:10.4018/979-8-3373-8172-5.ch008

Gut Microbiome-Centered Approaches in Modern Diagnostics and Clinical Impact

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