Human Oral Microbiome Database
Names
More detailed information about this field from each metasource.
Human Oral Microbiome Database
metasource: Fairsharing.org
version: FAIRsharing.org: HOMD; Human Oral Microbiome Database; DOI: https://doi.org/10.25504/FAIRsharing.v3jf2q; Last edited: April 26, 2021, 9:31 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
HOMD
metasource: Fairsharing.org
version: FAIRsharing.org: HOMD; Human Oral Microbiome Database; DOI: https://doi.org/10.25504/FAIRsharing.v3jf2q; Last edited: April 26, 2021, 9:31 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
eHOMD
metasource: re3data.org
version: re3data.org: eHOMD; editing status 2021-10-05; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMG2 last accessed: 2022-11-04
expanded Human Oral Microbiome Database
metasource: re3data.org
version: re3data.org: eHOMD; editing status 2021-10-05; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMG2 last accessed: 2022-11-04
Names
More detailed information about this field from each metasource.
Human Oral Microbiome Database
metasource: Fairsharing.orgversion: FAIRsharing.org: HOMD; Human Oral Microbiome Database; DOI: https://doi.org/10.25504/FAIRsharing.v3jf2q; Last edited: April 26, 2021, 9:31 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
HOMD
metasource: Fairsharing.orgversion: FAIRsharing.org: HOMD; Human Oral Microbiome Database; DOI: https://doi.org/10.25504/FAIRsharing.v3jf2q; Last edited: April 26, 2021, 9:31 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
eHOMD
metasource: re3data.orgversion: re3data.org: eHOMD; editing status 2021-10-05; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMG2 last accessed: 2022-11-04
expanded Human Oral Microbiome Database
metasource: re3data.orgversion: re3data.org: eHOMD; editing status 2021-10-05; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMG2 last accessed: 2022-11-04
Other names: HOMD, eHOMD, expanded Human Oral Microbiome Database
Names
More detailed information about this field from each metasource.
Human Oral Microbiome Database
metasource: Fairsharing.orgversion: FAIRsharing.org: HOMD; Human Oral Microbiome Database; DOI: https://doi.org/10.25504/FAIRsharing.v3jf2q; Last edited: April 26, 2021, 9:31 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
HOMD
metasource: Fairsharing.orgversion: FAIRsharing.org: HOMD; Human Oral Microbiome Database; DOI: https://doi.org/10.25504/FAIRsharing.v3jf2q; Last edited: April 26, 2021, 9:31 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
eHOMD
metasource: re3data.orgversion: re3data.org: eHOMD; editing status 2021-10-05; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMG2 last accessed: 2022-11-04
expanded Human Oral Microbiome Database
metasource: re3data.orgversion: re3data.org: eHOMD; editing status 2021-10-05; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMG2 last accessed: 2022-11-04
The Human Oral Microbiome Database (HOMD) provides a site-specific comprehensive database for the more than 600 prokaryote species that are present in the human oral cavity. It contains genomic information based on a curated 16S rRNA gene-based provisional naming scheme, and taxonomic information.
Description
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The Human Oral Microbiome Database (HOMD) provides a site-specific comprehensive database for the more than 600 prokaryote species that are present in the human oral cavity. It contains genomic information based on a curated 16S rRNA gene-based provisional naming scheme, and taxonomic information.
metasource: Fairsharing.orgversion: FAIRsharing.org: HOMD; Human Oral Microbiome Database; DOI: https://doi.org/10.25504/FAIRsharing.v3jf2q; Last edited: April 26, 2021, 9:31 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
The goal of creating the Human Oral Microbiome Database (HOMD) is to provide the scientific community with comprehensive information on the approximately 700 prokaryote species that are present in the human oral cavity. Approximately 49% are officially named, 17% unnamed (but cultivated) and 34% are known only as uncultivated phylotypes. The HOMD presents a provisional naming scheme for the currently unnamed species so that strain, clone, and probe data from any laboratory can be directly linked to a stably named reference scheme. The HOMD links sequence data with phenotypic, phylogenetic, clinical, and bibliographic information. Genome sequences for oral bacteria determined as part of this project, the Human Microbiome Project, and other sequencing projects are being added to the HOMD as they become available. Genomes for 315 oral taxa (46% of taxa on HOMD) are currently available on HOMD. The HOMD site offers easy to use tools for viewing all publically available oral bacterial genomes.
metasource: re3data.orgversion: re3data.org: eHOMD; editing status 2021-10-05; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMG2 last accessed: 2022-11-04
Webpage:
http://www.homd.org/Webpage
More detailed information about this field from each metasource.
http://www.homd.org/
metasource: Fairsharing.orgversion: FAIRsharing.org: HOMD; Human Oral Microbiome Database; DOI: https://doi.org/10.25504/FAIRsharing.v3jf2q; Last edited: April 26, 2021, 9:31 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
metasource: re3data.org
version: re3data.org: eHOMD; editing status 2021-10-05; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMG2 last accessed: 2022-11-04
Licence:
Name: Public DomainLicence name
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Public Domain
metasource: re3data.orgversion: re3data.org: eHOMD; editing status 2021-10-05; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMG2 last accessed: 2022-11-04
Licence URL
More detailed information about this field from each metasource.
http://www.homd.org/index.php
metasource: re3data.orgversion: re3data.org: eHOMD; editing status 2021-10-05; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMG2 last accessed: 2022-11-04
Publications:
Publications
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The Human Oral Microbiome Database: a web accessible resource for investigating oral microbe taxonomic and genomic information
PMID: 20624719
metasource: Fairsharing.org
version: FAIRsharing.org: HOMD; Human Oral Microbiome Database; DOI: https://doi.org/10.25504/FAIRsharing.v3jf2q; Last edited: April 26, 2021, 9:31 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
Publications
More detailed information about this field from each metasource.
The Human Oral Microbiome Database: a web accessible resource for investigating oral microbe taxonomic and genomic information
PMID: 20624719
metasource: Fairsharing.org
version: FAIRsharing.org: HOMD; Human Oral Microbiome Database; DOI: https://doi.org/10.25504/FAIRsharing.v3jf2q; Last edited: April 26, 2021, 9:31 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
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The Human Oral Microbiome Database: a web accessible resource for investigating oral microbe taxonomic and genomic information
PubMed citations: 472.
472 articles citing: The Human Oral Microbiome Database: a web accessible resource for investigating oral microbe taxonomic and genomic information
Omics profiles of fecal and oral microbiota change in irritable bowel syndrome patients with diarrhea and symptom exacerbation. PMID:35908139
Advances and Trends in Omics Technology Development. PMID:35860739
Reduced alpha diversity of the oral microbiome correlates with short progression-free survival in patients with relapsed/refractory multiple myeloma treated with ixazomib-based therapy (AGMT MM 1, phase II trial). PMID:35846090
Ecosystem-specific microbiota and microbiome databases in the era of big data. PMID:35842686
Breastmilk influences development and composition of the oral microbiome. PMID:35832839
Functional biomes beyond the bacteriome in the oral ecosystem. PMID:35814739
Comparison of the Oral Microbiota Structure among People from the Same Ethnic Group Living in Different Environments. PMID:35800217
Tooth-Specific Streptococcus mutans Distribution and Associated Microbiome. PMID:35744648
A potential oral microbiome signature associated with coronary artery disease in Tunisia. PMID:35695679
Diurnal and eating-associated microbial patterns revealed via high-frequency saliva sampling. PMID:35688483
Crosstalk between Body Microbiota and the Regulation of Immunity. PMID:35647199
Subgingival Microbiome in Pregnancy and a Potential Relationship to Early Term Birth. PMID:35646730
A Denture Use Model Associated with Candida spp. in Immunocompetent Male and Female Rats. PMID:35628722
SKIOME Project: a curated collection of skin microbiome datasets enriched with study-related metadata. PMID:35576001
Exposure to Antibacterial Chemicals Is Associated With Altered Composition of Oral Microbiome. PMID:35572708
The healthy female microbiome across body sites: effect of hormonal contraceptives and the menstrual cycle. PMID:35553675
Influence of probiotics on the periodontium, the oral microbiota and the immune response during orthodontic treatment in adolescent and adult patients (ProMB Trial): study protocol for a prospective, double-blind, controlled, randomized clinical trial. PMID:35477563
The Microbiome in Periodontitis and Diabetes. PMID:35464780
Long-Term Analysis of Resilience of the Oral Microbiome in Allogeneic Stem Cell Transplant Recipients. PMID:35456787
Oral Microbiota during Childhood and Its Role in Chemotherapy-Induced Oral Mucositis in Children with Cancer. PMID:35456122
The microbiome in reproductive health: protocol for a systems biology approach using a prospective, observational study design. PMID:35441092
The Evaluation of the Effects of Two Probiotic Strains on the Oral Ecosystem: A Randomized Clinical Trial. PMID:35434705
Particle Size, Mass Concentration, and Microbiota in Dental Aerosols. PMID:35384778
Site- and Time-Dependent Compositional Shifts in Oral Microbiota Communities. PMID:35300180
Salivary bacterial signatures in depression-obesity comorbidity are associated with neurotransmitters and neuroactive dipeptides. PMID:35287577
Oral Microbiome Is Associated With Incident Hypertension Among Postmenopausal Women. PMID:35234044
Comparability of microbiota of swabbed and spit saliva. PMID:35218587
Rapid and accurate identification of ribosomal RNA sequences via deep learning. PMID:35188571
The Role of Chronic Infection in Alzheimer's Disease: Instigators, Co-conspirators, or Bystanders? PMID:35186664
Diversity of site-specific microbes of occlusal and proximal lesions in severe- early childhood caries (S-ECC). PMID:35173909
Dietary carbohydrate intake is associated with the subgingival plaque oral microbiome abundance and diversity in a cohort of postmenopausal women. PMID:35173205
A pilot investigation into the influence of electronic cigarettes on oral bacteria. PMID:35126020
Microbial Communities in the Extraradicular and Intraradicular Infections Associated With Persistent Apical Periodontitis. PMID:35096647
Biome-microbiome interactions in peri-implantitis: A pilot investigation. PMID:35073418
Nrf2 in the Field of Dentistry with Special Attention to NLRP3. PMID:35052653
High-Level Acquisition of Maternal Oral Bacteria in Formula-Fed Infant Oral Microbiota. PMID:35038919
molBV reveals immune landscape of bacterial vaginosis and predicts human papillomavirus infection natural history. PMID:35017496
Potential Associations Between Microbiome and COVID-19. PMID:35004750
Isolation and identification of the oral bacteria and their characterization for bacteriocin production in the oral cavity. PMID:35002424
The lower airways microbiome and antimicrobial peptides in idiopathic pulmonary fibrosis differ from chronic obstructive pulmonary disease. PMID:34990493
Salivary Microbiota Is Significantly Less Diverse in Patients with Chronic Spontaneous Urticaria Compared to Healthy Controls: Preliminary Results. PMID:34947860
Differential analysis of the bacterial community in colostrum samples from women with gestational diabetes mellitus and obesity. PMID:34934118
Stability of healthy subgingival microbiome across space and time. PMID:34907334
Manganese transport by Streptococcus sanguinis in acidic conditions and its impact on growth in vitro and in vivo. PMID:34862691
Complete Genome Sequence of Arachnia rubra Strain DSM 100122T, a Cultured Member of the Human Oral Microbiome. PMID:34854708
Surface Modification to Modulate Microbial Biofilms-Applications in Dental Medicine. PMID:34832390
Airway microbiome dynamics and relationship to ventilator-associated infection in intubated pediatric patients. PMID:34811963
Overview of Candida albicans and Human Papillomavirus (HPV) Infection Agents and their Biomolecular Mechanisms in Promoting Oral Cancer in Pediatric Patients. PMID:34765678
Pilot study on selective antimicrobial effect of a halitosis mouthrinse: monospecies and saliva-derived microbiome in an in vitro model system. PMID:34745444
Long-term dynamics of the human oral microbiome during clinical disease progression. PMID:34742306
Metagenomic and Metatranscriptomic Insight Into Oral Biofilms in Periodontitis and Related Systemic Diseases. PMID:34721325
Effect of the skincare product on facial skin microbial structure and biophysical parameters: A pilot study. PMID:34713611
Biogeography of Bacterial Communities and Specialized Metabolism in Human Aerodigestive Tract Microbiomes. PMID:34704787
Coculture method for in vitro cultivation of uncultured oral bacteria. PMID:34703120
Discrimination of Bacterial Community Structures among Healthy, Gingivitis, and Periodontitis Statuses through Integrated Metatranscriptomic and Network Analyses. PMID:34698525
Comparison of Periodontal Bacteria of Edo and Modern Periods Using Novel Diagnostic Approach for Periodontitis With Micro-CT. PMID:34616690
Diversity of Treponema denticola and Other Oral Treponeme Lineages in Subjects with Periodontitis and Gingivitis. PMID:34585987
Interrelationship between the Microbial Communities of the Root Canals and Periodontal Pockets in Combined Endodontic-Periodontal Diseases. PMID:34576820
Clinical Relevance of the Microbiome in Odontogenic Abscesses. PMID:34571794
Cigarette Smoking and Opium Use in Relation to the Oral Microbiota in Iran. PMID:34523990
Species-Level Resolution of Female Bladder Microbiota from 16S rRNA Amplicon Sequencing. PMID:34519534
The effects of cigarette smoking on the salivary and tongue microbiome. PMID:34505401
An in vitro model for studies of attenuation of antibiotic-inhibited growth of Aggregatibacter actinomycetemcomitans Y4 by polyamines. PMID:34486245
Metagenomic evidence for a polymicrobial signature of sepsis. PMID:34477543
Oral microbiome shifts during pregnancy and adverse pregnancy outcomes: Hormonal and Immunologic changes at play. PMID:34463984
Insights into epidemiologic assessments of the microbiome and challenges in identifying microbiome relationships with adverse pregnancy outcomes. PMID:34458070
Oral Factors That Impact the Oral Microbiota in Parkinson's Disease. PMID:34442695
Salivary proteome of aphthous stomatitis reveals the participation of vitamin metabolism, nutrients, and bacteria. PMID:34341431
Thermophilin 110 inhibits growth and biofilm formation of Streptococcus mutans. PMID:34307072
Variations in the oral microbiome are associated with depression in young adults. PMID:34294835
Non-surgical treatment for periodontitis and peri-implantitis: longitudinal clinical and bacteriological findings-A case report with a 7-year follow-up evaluation. PMID:34285805
Murine Salivary Amylase Protects Against Streptococcus mutans-Induced Caries. PMID:34276419
Prospective Observational Study of Bisphosphonate-Related Osteonecrosis of the Jaw in Multiple Myeloma: Microbiota Profiling and Cytokine Expression. PMID:34249765
In-vivo impact of common cosmetic preservative systems in full formulation on the skin microbiome. PMID:34234383
Preterm Birth Is Correlated With Increased Oral Originated Microbiome in the Gut. PMID:34222033
Microbiome of Odontogenic Abscesses. PMID:34208451
Human variation in gingival inflammation. PMID:34193520
The impact of caries status on supragingival plaque and salivary microbiome in children with mixed dentition: a cross-sectional survey. PMID:34172026
Clinical utility of subgingival plaque-specific bacteria in salivary microbiota for detecting periodontitis. PMID:34170942
Submucosal microbiome of peri-implant sites: A cross-sectional study. PMID:34101220
Airflow limitation and tongue microbiota in community-dwelling elderly individuals. PMID:34046490
Subgingival microbiome of deep and shallow periodontal sites in patients with rheumatoid arthritis: a pilot study. PMID:33964928
Role of microbes in the pathogenesis of neuropsychiatric disorders. PMID:33957173
Small molecule natural products in human nasal/oral microbiota. PMID:33945611
Using Oral Microbiota Data to Design a Short Sucrose Intake Index. PMID:33919427
The Oral Microbiome in Periodontal Health. PMID:33828997
Isolation and Description of Catonella massiliensis sp. nov., a Novel Catonella Species, Isolated from a Stable Periodontitis Subject. PMID:33808593
Looking beyond the smokescreen: can the oral microbiome be a tool or target in the management of tobacco-associated oral cancer? PMID:33777172
Exodontia associated bacteremia in horses characterized by next generation sequencing. PMID:33737590
Spatial scale in analysis of the dental plaque microbiome. PMID:33690940
LuxS quorum sensing system and biofilm formation of oral microflora: A short review article. PMID:33679103
Characterization of the Oral Microbiome of Medicated Type-2 Diabetes Patients. PMID:33613481
A 16S rRNA Gene and Draft Genome Database for the Murine Oral Bacterial Community. PMID:33563782
Subgingival microbiota in a population with and without cognitive dysfunction. PMID:33537116
Parents with periodontitis impact the subgingival colonization of their offspring. PMID:33446688
Relationship between dental and periodontal health status and the salivary microbiome: bacterial diversity, co-occurrence networks and predictive models. PMID:33441710
Distribution of Mixotrophy and Desiccation Survival Mechanisms across Microbial Genomes in an Arid Biological Soil Crust Community. PMID:33436509
Discriminating Microbial Community Structure Between Peri-Implantitis and Periodontitis With Integrated Metagenomic, Metatranscriptomic, and Network Analysis. PMID:33425781
Salivary microbiome with gastroesophageal reflux disease and treatment. PMID:33420219
Fermentative Foods: Microbiology, Biochemistry, Potential Human Health Benefits and Public Health Issues. PMID:33396397
Epstein-Barr Virus-Oral Bacterial Link in the Development of Oral Squamous Cell Carcinoma. PMID:33352891
Compositional Shift of Oral Microbiota Following Surgical Resection of Tongue Cancer. PMID:33330141
Functional and genetic markers of niche partitioning among enigmatic members of the human oral microbiome. PMID:33323122
Bacterial diversity and functional analysis of severe early childhood caries and recurrence in India. PMID:33277566
New Insights into the Microbial Profiles of Infected Root Canals in Traumatized Teeth. PMID:33260621
Optimizing the quality of clinical studies on oral microbiome: A practical guide for planning, performing, and reporting. PMID:33226702
Isolation and cultivation of candidate phyla radiation Saccharibacteria (TM7) bacteria in coculture with bacterial hosts. PMID:33209205
Corynebacterium matruchotii Demography and Adhesion Determinants in the Oral Cavity of Healthy Individuals. PMID:33202844
A meta-analysis of the effect of binge drinking on the oral microbiome and its relation to Alzheimer's disease. PMID:33199776
Response of Salivary Microbiota to Caries Preventive Treatment in Aboriginal and Torres Strait Islander Children. PMID:33149844
Subgingival microbiome is associated with alveolar bone loss measured 5 years later in postmenopausal women. PMID:33141988
Characterization of the Streptococcus mutans SMU.1703c-SMU.1702c Operon Reveals Its Role in Riboflavin Import and Response to Acid Stress. PMID:33077636
Multi-omic detection of Mycobacterium leprae in archaeological human dental calculus. PMID:33012227
Investigating the demographic history of Japan using ancient oral microbiota. PMID:33012223
Oral flora meningoencephalitis diagnosis by next-generation DNA sequencing. PMID:32974557
Cardiobacterium hominis endocarditis complicated by aortic root abscess: a case report. PMID:32974556
Generation of Comprehensive Ecosystem-Specific Reference Databases with Species-Level Resolution by High-Throughput Full-Length 16S rRNA Gene Sequencing and Automated Taxonomy Assignment (AutoTax). PMID:32963001
Alteration of salivary microbiome in periodontitis with or without type-2 diabetes mellitus and metformin treatment. PMID:32958790
A case study of salivary microbiome in smokers and non-smokers in Hungary: analysis by shotgun metagenome sequencing. PMID:32922678
The airway microbiota and exacerbations of COPD. PMID:32904583
Evaluation of computational methods for human microbiome analysis using simulated data. PMID:32864214
Effects of eradication of Helicobacter pylori on oral malodor and the oral environment: a single-center observational study. PMID:32859247
Use of an oxygen planar optode to assess the effect of high velocity microsprays on oxygen penetration in a human dental biofilms in-vitro. PMID:32825831
Randomised, double-blind, placebo-controlled trial of oral probiotic Streptococcus salivarius M18 on head and neck cancer patients post-radiotherapy: a pilot study. PMID:32764634
Gastric Microbiota in a Low-Helicobacter pylori Prevalence General Population and Their Associations With Gastric Lesions. PMID:32764211
Heritability of Oral Microbiota and Immune Responses to Oral Bacteria. PMID:32726935
Acquisition and Adaptation of Ultra-small Parasitic Reduced Genome Bacteria to Mammalian Hosts. PMID:32698001
Classification of 16S rRNA reads is improved using a niche-specific database constructed by near-full length sequencing. PMID:32658916
Bacteriome and mycobiome and bacteriome-mycobiome interactions in head and neck squamous cell carcinoma. PMID:32637029
Relationship between the Oral and Vaginal Microbiota of South African Adolescents with High Prevalence of Bacterial Vaginosis. PMID:32635588
Comparative evaluation of peptidome and microbiota in different types of saliva samples. PMID:32617306
The apical root canal system microbial communities determined by next-generation sequencing. PMID:32616783
Immune status, and not HIV infection or exposure, drives the development of the oral microbiota. PMID:32616727
Subgingival microbiome and clinical periodontal status in an elderly cohort: The WHICAP ancillary study of oral health. PMID:32533776
Human microbiome: an academic update on human body site specific surveillance and its possible role. PMID:32524177
Dental Calculus as a Tool to Study the Evolution of the Mammalian Oral Microbiome. PMID:32467975
Identification of Potential Oral Microbial Biomarkers for the Diagnosis of Periodontitis. PMID:32443919
The Bacterial Microbiota of Gastrointestinal Cancers: Role in Cancer Pathogenesis and Therapeutic Perspectives. PMID:32440192
Metabolomics and Multi-Omics Integration: A Survey of Computational Methods and Resources. PMID:32429287
Construction of habitat-specific training sets to achieve species-level assignment in 16S rRNA gene datasets. PMID:32414415
Antibacterial Effect of Cupral® on Oral Biofilms - An In-Vitro Study. PMID:32342037
Akkermansia and Microbial Degradation of Mucus in Cats and Dogs: Implications to the Growing Worldwide Epidemic of Pet Obesity. PMID:32326394
Similarity of salivary microbiome in parents and adult children. PMID:32296599
Profiling of Oral Bacterial Communities. PMID:32286907
Salivary Microbiota Shifts under Sustained Consumption of Oolong Tea in Healthy Adults. PMID:32244337
Disrupted tongue microbiota and detection of nonindigenous bacteria on the day of allogeneic hematopoietic stem cell transplantation. PMID:32150591
ProteoClade: A taxonomic toolkit for multi-species and metaproteomic analysis. PMID:32150535
Oral Microbiota Profile Associates with Sugar Intake and Taste Preference Genes. PMID:32138214
Ancient DNA analysis of food remains in human dental calculus from the Edo period, Japan. PMID:32130218
Metagenomic investigation of bacteria associated with dental lesions: a cross-sectional study. PMID:32040467
Quality of whole genome sequencing from blood versus saliva derived DNA in cardiac patients. PMID:31996208
Influence of gastrectomy for gastric cancer treatment on faecal microbiome and metabolome profiles. PMID:31953253
Salivary microbiota and inflammation-related proteins in patients with psoriasis. PMID:31916654
Using big data to promote precision oral health in the context of a learning healthcare system. PMID:31905246
Regrowth of Microcosm Biofilms on Titanium Surfaces After Various Antimicrobial Treatments. PMID:31824464
The human oral cavity microbiota composition during acute tonsillitis: a cross-sectional survey. PMID:31806002
Comparing dental plaque microbiome diversity of extrinsic black stain in the primary dentition using Illumina MiSeq sequencing technique. PMID:31796065
Maturation of the Oral Microbiome in Caries-Free Toddlers: A Longitudinal Study. PMID:31771395
Oral microbial community composition is associated with pancreatic cancer: A case-control study in Iran. PMID:31750624
Microbial changes in relation to oral mucositis in autologous hematopoietic stem cell transplantation recipients. PMID:31729407
Comparison of oral microbiome profiles in stimulated and unstimulated saliva, tongue, and mouth-rinsed water. PMID:31695050
Oral Microbiome Alterations Associated with Early Childhood Caries Highlight the Importance of Carbohydrate Metabolic Activities. PMID:31690590
Species-Level Salivary Microbial Indicators of Well-Resolved Periodontitis: A Preliminary Investigation. PMID:31681625
The subgingival microbiome associated with periodontitis in type 2 diabetes mellitus. PMID:31673077
Isolation and characterization of five novel probiotic strains from Korean infant and children faeces. PMID:31671118
Oral microbial influences on oral mucositis during radiotherapy treatment of head and neck cancer. PMID:31650293
Cigarette smoking and oral microbiota in low-income and African-American populations. PMID:31563898
Association Between the Respiratory Microbiome and Susceptibility to Influenza Virus Infection. PMID:31562814
Bioactive Synthetic-Bioinformatic Natural Product Cyclic Peptides Inspired by Nonribosomal Peptide Synthetase Gene Clusters from the Human Microbiome. PMID:31545899
"The dead shall be raised": Multidisciplinary analysis of human skeletons reveals complexity in 19th century immigrant socioeconomic history and identity in New Haven, Connecticut. PMID:31498793
Next-generation sequencing of whole saliva from patients with primary Sjögren's syndrome and non-Sjögren's sicca reveals comparable salivary microbiota. PMID:31497258
Metaproteomics analysis of microbial diversity of human saliva and tongue dorsum in young healthy individuals. PMID:31497257
The respiratory microbiota: associations with influenza symptomatology and viral shedding. PMID:31451313
Lollipop containing Glycyrrhiza uralensis extract reduces Streptococcus mutans colonization and maintains oral microbial diversity in Chinese preschool children. PMID:31442287
Characteristics of the Salivary Microbiota in Patients With Various Digestive Tract Cancers. PMID:31428073
Role of Oral Microbiome Signatures in Diagnosis and Prognosis of Oral Cancer. PMID:31370775
Variations in Oral Microbiota Composition Are Associated With a Risk of Throat Cancer. PMID:31334130
The Subgingival Microbiome Relationship to Periodontal Disease in Older Women. PMID:31329044
A new framework for approaching precision bioremediation of PAH contaminated soils. PMID:31327574
Compositional and Functional Analysis of the Microbiome in Tissue and Saliva of Oral Squamous Cell Carcinoma. PMID:31297102
Oral microbiome and health. PMID:31294203
Is the Oral Microbiome Associated with Blood Pressure in Older Women? PMID:31236901
metaQuantome: An Integrated, Quantitative Metaproteomics Approach Reveals Connections Between Taxonomy and Protein Function in Complex Microbiomes. PMID:31235611
Relationship between acetaldehyde concentration in mouth air and characteristics of microbiota of tongue dorsum in Japanese healthy adults: a cross-sectional study. PMID:31215600
Association between the oral microbiome and brain resting state connectivity in smokers. PMID:31201984
Metabolic network percolation quantifies biosynthetic capabilities across the human oral microbiome. PMID:31194675
Deep sequencing of biofilm microbiomes on dental composite materials. PMID:31143408
Transition of Bacterial Diversity and Composition in Tongue Microbiota during the First Two Years of Life. PMID:31142620
Dysbiosis and Variation in Predicted Functions of the Granulation Tissue Microbiome in HPV Positive and Negative Severe Chronic Periodontitis. PMID:31111067
Oral microbiome: Unveiling the fundamentals. PMID:31110428
Mucosal-associated invariant T cells and oral microbiome in persistent apical periodontitis. PMID:31068577
Gender-Specific Associations Between Saliva Microbiota and Body Size. PMID:31024514
A Novel Human Microbe-Disease Association Prediction Method Based on the Bidirectional Weighted Network. PMID:31024478
Identification of the Bacterial Biosynthetic Gene Clusters of the Oral Microbiome Illuminates the Unexplored Social Language of Bacteria during Health and Disease. PMID:30992349
Klebsiella and Providencia emerge as lone survivors following long-term starvation of oral microbiota. PMID:30975748
MGS-Fast: Metagenomic shotgun data fast annotation using microbial gene catalogs. PMID:30942867
Saccharibacteria (TM7) in the Human Oral Microbiome. PMID:30894042
Laboratory contamination over time during low-biomass sample analysis. PMID:30887686
Assessing alignment-based taxonomic classification of ancient microbial DNA. PMID:30886779
Frequency of Tongue Cleaning Impacts the Human Tongue Microbiome Composition and Enterosalivary Circulation of Nitrate. PMID:30881924
Common skin bacteria protect their host from oxidative stress through secreted antioxidant RoxP. PMID:30837648
Modulation of Candida albicans virulence in in vitro biofilms by oral bacteria. PMID:30825340
The Adenoids but Not the Palatine Tonsils Serve as a Reservoir for Bacteria Associated with Secretory Otitis Media in Small Children. PMID:30801022
Streptococcus Salivarius: A Potential Salivary Biomarker for Orofacial Granulomatosis and Crohn's Disease? PMID:30796823
Fecal transplant modifies urine chemistry risk factors for urinary stone disease. PMID:30789675
Danger signals in oral cavity-related diseases. PMID:30776147
Evaluation of Oral Cavity DNA Extraction Methods on Bacterial and Fungal Microbiota. PMID:30728424
Gastric Helicobacter pylori infection perturbs human oral microbiota. PMID:30713820
Increased tooth brushing frequency is associated with reduced gingival pocket bacterial diversity in patients with intracranial aneurysms. PMID:30701137
Carbonic Anhydrase 6 Gene Variation influences Oral Microbiota Composition and Caries Risk in Swedish adolescents. PMID:30679524
The respiratory microbiome and susceptibility to influenza virus infection. PMID:30625134
Microcosm biofilms cultured from different oral niches in periodontitis patients. PMID:30598734
Xylitol and sorbitol effects on the microbiome of saliva and plaque. PMID:30598728
Composition Analysis and Feature Selection of the Oral Microbiota Associated with Periodontal Disease. PMID:30581850
Establishment and Development of Oral Microflora in 12-24 Month-Old Toddlers Monitored by High-Throughput Sequencing. PMID:30564560
Simple statistical identification and removal of contaminant sequences in marker-gene and metagenomics data. PMID:30558668
New Insights into Human Nostril Microbiome from the Expanded Human Oral Microbiome Database (eHOMD): a Resource for the Microbiome of the Human Aerodigestive Tract. PMID:30534599
The Oral Bacterium Fusobacterium nucleatum Binds Staphylococcus aureus and Alters Expression of the Staphylococcal Accessory Regulator sarA. PMID:30474730
Quantitative metaproteomics of medieval dental calculus reveals individual oral health status. PMID:30459334
Characterization of a Signaling System in Streptococcus mitis That Mediates Interspecies Communication with Streptococcus pneumoniae. PMID:30389765
Prospective study of oral microbiome and colorectal cancer risk in low-income and African American populations. PMID:30365870
Root Microbiota in Primary and Secondary Apical Periodontitis. PMID:30356779
Keystone Species in Pregnancy Gingivitis: A Snapshot of Oral Microbiome During Pregnancy and Postpartum Period. PMID:30356676
Diversity of macaque microbiota compared to the human counterparts. PMID:30349024
Increased transferrin saturation is associated with subgingival microbiota dysbiosis and severe periodontitis in genetic haemochromatosis. PMID:30341355
Community profiling of the urinary microbiota: considerations for low-biomass samples. PMID:30315209
Oral mucosa-on-a-chip to assess layer-specific responses to bacteria and dental materials. PMID:30310527
Comparison of oral flora before and after triple therapy for Helicobacter pylori eradication in patient with gastric disease. PMID:30291568
Molecular analysis of oral microflora in patients with primary Sjögren's syndrome by using high-throughput sequencing. PMID:30280027
Obesity alters composition and diversity of the oral microbiota in patients with type 2 diabetes mellitus independently of glycemic control. PMID:30273364
Subgingival microbiome of rheumatoid arthritis patients in relation to their disease status and periodontal health. PMID:30231060
Comparison of initial oral microbiomes of young adults with and without cavitated dentin caries lesions using an in situ biofilm model. PMID:30228377
Human defects in STAT3 promote oral mucosal fungal and bacterial dysbiosis. PMID:30185668
TaxAss: Leveraging a Custom Freshwater Database Achieves Fine-Scale Taxonomic Resolution. PMID:30185512
High-resolution ISR amplicon sequencing reveals personalized oral microbiome. PMID:30185233
In situ substrate-formed biofilms using IDODS mimic supragingival tooth-formed biofilms. PMID:30181819
Meeting report: a close look at oral biofilms and microbiomes. PMID:30111787
Tongue Microbiota and Oral Health Status in Community-Dwelling Elderly Adults. PMID:30111628
Characterization of oral microbiota and acetaldehyde production. PMID:30013723
Unique subgingival microbiota associated with periodontitis in cirrhosis patients. PMID:30013030
A parallel computational framework for ultra-large-scale sequence clustering analysis. PMID:30010718
Defining the gut microbiota in individuals with periodontal diseases: an exploratory study. PMID:29988721
Differential preservation of endogenous human and microbial DNA in dental calculus and dentin. PMID:29959351
Bacterial Colonization and Tissue Compatibility of Denture Base Resins. PMID:29914101
Oral microbiome development during childhood: an ecological succession influenced by postnatal factors and associated with tooth decay. PMID:29899505
Live and let die: Hydrogen peroxide production by the commensal flora and its role in maintaining a symbiotic microbiome. PMID:29897662
The Oral Microbiome Bank of China. PMID:29760467
Oral microbiomes: more and more importance in oral cavity and whole body. PMID:29736705
Microbiome in oral and maxillofacial surgery. PMID:29732307
Association of Coffee and Tea Intake with the Oral Microbiome: Results from a Large Cross-Sectional Study. PMID:29703763
Drinking alcohol is associated with variation in the human oral microbiome in a large study of American adults. PMID:29685174
Microbiota and Metatranscriptome Changes Accompanying the Onset of Gingivitis. PMID:29666288
Characterization of the salivary microbiome in people with obesity. PMID:29576948
Self-reported bovine milk intake is associated with oral microbiota composition. PMID:29561863
The Impact of Maltitol-Sweetened Chewing Gum on the Dental Plaque Biofilm Microbiota Composition. PMID:29559963
Oropharyngeal Microbiota in Frail Older Patients Unaffected by Time in Hospital. PMID:29515974
Transient bacteremia induced by dental cleaning is not associated with infection of central venous catheters in patients with cancer. PMID:29428697
Comparative analysis of Salivette® and paraffin gum preparations for establishment of a metaproteomics analysis pipeline for stimulated human saliva. PMID:29410770
Polyphosphate-Accumulating Bacteria: Potential Contributors to Mineral Dissolution in the Oral Cavity. PMID:29352083
Association of Oral Microbiome With Risk for Incident Head and Neck Squamous Cell Cancer. PMID:29327043
Oral Microbiota: Microbial Biomarkers of Metabolic Syndrome Independent of Host Genetic Factors. PMID:29326886
The Human Gastric Microbiome Is Predicated upon Infection with Helicobacter pylori. PMID:29312210
The Porphyromonas gingivalis/Host Interactome Shows Enrichment in GWASdb Genes Related to Alzheimer's Disease, Diabetes and Cardiovascular Diseases. PMID:29311898
Metabolomics technology and bioinformatics for precision medicine. PMID:29304189
Retrieval of a million high-quality, full-length microbial 16S and 18S rRNA gene sequences without primer bias. PMID:29291348
High-resolution bacterial 16S rRNA gene profile meta-analysis and biofilm status reveal common colorectal cancer consortia. PMID:29214046
Oral Microbiome Composition Reflects Prospective Risk for Esophageal Cancers. PMID:29196415
Assessing species biomass contributions in microbial communities via metaproteomics. PMID:29146960
The making of a miscreant: tobacco smoke and the creation of pathogen-rich biofilms. PMID:29081982
Exploring the salivary microbiome of children stratified by the oral hygiene index. PMID:28934367
A Quorum-Sensing System That Regulates Streptococcus pneumoniae Biofilm Formation and Surface Polysaccharide Production. PMID:28932816
The Human Salivary Microbiome Is Shaped by Shared Environment Rather than Genetics: Evidence from a Large Family of Closely Related Individuals. PMID:28900019
Ecological Therapeutic Opportunities for Oral Diseases. PMID:28840820
Insight into Oral Biofilm: Primary, Secondary and Residual Caries and Phyto-Challenged Solutions. PMID:28839480
LRLSHMDA: Laplacian Regularized Least Squares for Human Microbe-Disease Association prediction. PMID:28790448
Veillonella Catalase Protects the Growth of Fusobacterium nucleatum in Microaerophilic and Streptococcus gordonii-Resident Environments. PMID:28778894
Mucosal microbiome dysbiosis in gastric carcinogenesis. PMID:28765474
Effect of erythritol on microbial ecology of in vitro gingivitis biofilms. PMID:28748040
Multi-omics Analysis of Periodontal Pocket Microbial Communities Pre- and Posttreatment. PMID:28744486
Saliva and tooth biofilm bacterial microbiota in adolescents in a low caries community. PMID:28724921
The Microbiome and Blood Pressure: Can Microbes Regulate Our Blood Pressure? PMID:28674682
Degradation of Incretins and Modulation of Blood Glucose Levels by Periodontopathic Bacterial Dipeptidyl Peptidase 4. PMID:28630069
Dysbiosis in chronic periodontitis: Key microbial players and interactions with the human host. PMID:28623321
Complete Genome Sequence of Veillonella atypica OK5, the First Transformable Strain in the Species. PMID:28572307
A tale of two risks: smoking, diabetes and the subgingival microbiome. PMID:28534880
A Critical Assessment of the Microorganisms Proposed to be Important to Enhanced Biological Phosphorus Removal in Full-Scale Wastewater Treatment Systems. PMID:28496434
Influence of chronic azithromycin treatment on the composition of the oropharyngeal microbial community in patients with severe asthma. PMID:28486933
Arginine Improves pH Homeostasis via Metabolism and Microbiome Modulation. PMID:28486080
A Robust Framework for Microbial Archaeology. PMID:28460196
Exploring the oral microflora of preschool children. PMID:28434085
Cultivation strategies for growth of uncultivated bacteria. PMID:28392745
Second Era of OMICS in Caries Research: Moving Past the Phase of Disillusionment. PMID:28384412
Relative abundance of total subgingival plaque-specific bacteria in salivary microbiota reflects the overall periodontal condition in patients with periodontitis. PMID:28369125
MiDAS 2.0: an ecosystem-specific taxonomy and online database for the organisms of wastewater treatment systems expanded for anaerobic digester groups. PMID:28365734
Members of the Oral Microbiota Are Associated with IL-8 Release by Gingival Epithelial Cells in Healthy Individuals. PMID:28360899
Porphyromonas gingivalis is the most abundant species detected in coronary and femoral arteries. PMID:28326156
Salivary microbiota in individuals with different levels of caries experience. PMID:28326153
Clustering of Subgingival Microbiota Reveals Microbial Disease Ecotypes Associated with Clinical Stages of Periodontitis in a Cross-Sectional Study. PMID:28298910
The Host Microbiome Regulates and Maintains Human Health: A Primer and Perspective for Non-Microbiologists. PMID:28292977
Salivary inflammatory markers and microbiome in normoglycemic lean and obese children compared to obese children with type 2 diabetes. PMID:28253297
A randomised clinical study to determine the effect of a toothpaste containing enzymes and proteins on plaque oral microbiome ecology. PMID:28240240
Integrated metagenomic data analysis demonstrates that a loss of diversity in oral microbiota is associated with periodontitis. PMID:28198672
Identification and characterization of a novel Fusobacterium nucleatum adhesin involved in physical interaction and biofilm formation with Streptococcus gordonii. PMID:28173636
Oral Microbiota in Infants Fed a Formula Supplemented with Bovine Milk Fat Globule Membranes - A Randomized Controlled Trial. PMID:28099499
Evaluating the Impact of DNA Extraction Method on the Representation of Human Oral Bacterial and Fungal Communities. PMID:28099455
The Denture-Associated Oral Microbiome in Health and Stomatitis. PMID:28066812
Exploration of bacterial species associated with the salivary microbiome of individuals with a low susceptibility to dental caries. PMID:28013437
Comparative metagenomics reveals taxonomically idiosyncratic yet functionally congruent communities in periodontitis. PMID:27991530
Enterosalivary nitrate metabolism and the microbiome: Intersection of microbial metabolism, nitric oxide and diet in cardiac and pulmonary vascular health. PMID:27989792
Influences of pH and Iron Concentration on the Salivary Microbiome in Individual Humans with and without Caries. PMID:27940544
Multilocus Sequence Analysis of Phylogroup 1 and 2 Oral Treponeme Strains. PMID:27864174
Human Oral Buccal Microbiomes Are Associated with Farmworker Status and Azinphos-Methyl Agricultural Pesticide Exposure. PMID:27836847
Salivary microbiomes of indigenous Tsimane mothers and infants are distinct despite frequent premastication. PMID:27833819
Pharmacometabolomics Informs Viromics toward Precision Medicine. PMID:27833560
The mycobiome of root canal infections is correlated to the bacteriome. PMID:27771826
Discovery of MRSA active antibiotics using primary sequence from the human microbiome. PMID:27748750
Human oral microbiome and prospective risk for pancreatic cancer: a population-based nested case-control study. PMID:27742762
Distinct Ecological Niche of Anal, Oral, and Cervical Mucosal Microbiomes in Adolescent Women. PMID:27698612
Probing the diversity of healthy oral microbiome with bioinformatics approaches. PMID:27697111
Comparative Genome Analysis of the Daptomycin-Resistant Streptococcus anginosus Strain J4206 Associated with Breakthrough Bacteremia. PMID:27678123
Emerging role of bacteria in oral carcinogenesis: a review with special reference to perio-pathogenic bacteria. PMID:27677454
Metaproteomics of saliva identifies human protein markers specific for individuals with periodontitis and dental caries compared to orally healthy controls. PMID:27672500
The Oral Microbiome of Children: Development, Disease, and Implications Beyond Oral Health. PMID:27628595
rRNAFilter: A Fast Approach for Ribosomal RNA Read Removal Without a Reference Database. PMID:27610931
Distinguishing the Signals of Gingivitis and Periodontitis in Supragingival Plaque: a Cross-Sectional Cohort Study in Malawi. PMID:27520811
Distinct interacting core taxa in co-occurrence networks enable discrimination of polymicrobial oral diseases with similar symptoms. PMID:27499042
A novel compound to maintain a healthy oral plaque ecology in vitro. PMID:27476444
Mucosal Regulatory T Cells and T Helper 17 Cells in HIV-Associated Immune Activation. PMID:27379092
PhyloToAST: Bioinformatics tools for species-level analysis and visualization of complex microbial datasets. PMID:27357721
A Modified Glycosaminoglycan, GM-0111, Inhibits Molecular Signaling Involved in Periodontitis. PMID:27308827
Species-level core oral bacteriome identified by 16S rRNA pyrosequencing in a healthy young Arab population. PMID:27193835
First Cultivation of Health-Associated Tannerella sp. HOT-286 (BU063). PMID:27193146
Impact of Microbiome on Ocular Health. PMID:27189865
What are We Learning and What Can We Learn from the Human Oral Microbiome Project? PMID:27152251
Term-seq reveals abundant ribo-regulation of antibiotics resistance in bacteria. PMID:27120414
Comparison of Boiling and Robotics Automation Method in DNA Extraction for Metagenomic Sequencing of Human Oral Microbes. PMID:27104353
Ultra-deep and quantitative saliva proteome reveals dynamics of the oral microbiome. PMID:27102203
Tongue Coating and the Salivary Microbial Communities Vary in Children with Halitosis. PMID:27080513
Concordance of HOMIM and HOMINGS technologies in the microbiome analysis of clinical samples. PMID:27065347
Red fluorescent biofilm: the thick, the old, and the cariogenic. PMID:27060056
Lateral Gene Transfer in a Heavy Metal-Contaminated-Groundwater Microbial Community. PMID:27048805
The Power of Engaging Citizen Scientists for Scientific Progress. PMID:27047581
RiboFR-Seq: a novel approach to linking 16S rRNA amplicon profiles to metagenomes. PMID:26984526
Levels of Candidate Periodontal Pathogens in Subgingival Biofilm. PMID:26936213
Bacterial diversity in saliva and oral health-related conditions: the Hisayama Study. PMID:26907866
The BBaRTS Healthy Teeth Behaviour Change Programme for preventing dental caries in primary school children: study protocol for a cluster randomised controlled trial. PMID:26897029
Quorum sensing activity of Citrobacter amalonaticus L8A, a bacterium isolated from dental plaque. PMID:26860259
Temporal Stability of the Salivary Microbiota in Oral Health. PMID:26799067
Salivary bacterial fingerprints of established oral disease revealed by the Human Oral Microbe Identification using Next Generation Sequencing (HOMINGS) technique. PMID:26782357
In Vitro Cultivation of 'Unculturable' Oral Bacteria, Facilitated by Community Culture and Media Supplementation with Siderophores. PMID:26764907
Species-Level Identification of Actinomyces Isolates Causing Invasive Infections: Multiyear Comparison of Vitek MS (Matrix-Assisted Laser Desorption Ionization-Time of Flight Mass Spectrometry) to Partial Sequencing of the 16S rRNA Gene. PMID:26739153
Different gastric microbiota compositions in two human populations with high and low gastric cancer risk in Colombia. PMID:26729566
Absence of Bacteria on Coronary Angioplasty Balloons from Unselected Patients: Results with Use of a High Sensitivity Polymerase Chain Reaction Assay. PMID:26695491
Metagenomic sequencing of bile from gallstone patients to identify different microbial community patterns and novel biliary bacteria. PMID:26625708
Characterization of the salivary microbiome in patients with pancreatic cancer. PMID:26587342
Intrinsic challenges in ancient microbiome reconstruction using 16S rRNA gene amplification. PMID:26563586
Identification of Small-Molecule Inhibitors against Meso-2, 6-Diaminopimelate Dehydrogenase from Porphyromonas gingivalis. PMID:26544875
The Microbiome in Populations with a Low and High Prevalence of Caries. PMID:26442950
An accurate and efficient experimental approach for characterization of the complex oral microbiota. PMID:26437933
Robust species taxonomy assignment algorithm for 16S rRNA NGS reads: application to oral carcinoma samples. PMID:26426306
In vitro culture of previously uncultured oral bacterial phylotypes. PMID:26407883
High-quality draft genome sequences of five anaerobic oral bacteria and description of Peptoanaerobacter stomatis gen. nov., sp. nov., a new member of the family Peptostreptococcaceae. PMID:26221418
Metagenomic sequencing reveals altered metabolic pathways in the oral microbiota of sailors during a long sea voyage. PMID:26154405
Combining metagenomics, metatranscriptomics and viromics to explore novel microbial interactions: towards a systems-level understanding of human microbiome. PMID:26137199
Comparison of the Oral Microbiomes of Canines and Their Owners Using Next-Generation Sequencing. PMID:26134411
The Influence of Smoking on the Peri-Implant Microbiome. PMID:26124222
Inter-Individual Differences in the Oral Bacteriome Are Greater than Intra-Day Fluctuations in Individuals. PMID:26121551
The Biofilm Community-Rebels with a Cause. PMID:26120510
MiDAS: the field guide to the microbes of activated sludge. PMID:26120139
A multidimensional approach to the management of severe asthma: Inflammometry, molecular microbiology and bronchial thermoplasty. PMID:26083543
Meta-omics uncover temporal regulation of pathways across oral microbiome genera during in vitro sugar metabolism. PMID:26023872
Maturation of Oral Microbiota in Children with or without Dental Caries. PMID:26020247
Oral Microbiota Shift after 12-Week Supplementation with Lactobacillus reuteri DSM 17938 and PTA 5289; A Randomized Control Trial. PMID:25946126
Functional signatures of oral dysbiosis during periodontitis progression revealed by microbial metatranscriptome analysis. PMID:25918553
Comparative genome analysis of Pediococcus damnosus LMG 28219, a strain well-adapted to the beer environment. PMID:25880122
Beyond microbial community composition: functional activities of the oral microbiome in health and disease. PMID:25862077
Not all biofluids are created equal: chewing over salivary diagnostics and the epigenome. PMID:25778408
Dynamic changes in the subgingival microbiome and their potential for diagnosis and prognosis of periodontitis. PMID:25691586
Dental plaque development on a hydroxyapatite disk in young adults observed by using a barcoded pyrosequencing approach. PMID:25633431
Rapid identification of oral Actinomyces species cultivated from subgingival biofilm by MALDI-TOF-MS. PMID:25597306
Culture and molecular-based profiles show shifts in bacterial communities of the upper respiratory tract that occur with age. PMID:25575312
Cultivation of a human-associated TM7 phylotype reveals a reduced genome and epibiotic parasitic lifestyle. PMID:25535390
Pyrosequencing of supra- and subgingival biofilms from inflamed peri-implant and periodontal sites. PMID:25518856
Salivary mucin 19 glycoproteins: innate immune functions in Streptococcus mutans-induced caries in mice and evidence for expression in human saliva. PMID:25512380
Direct evidence of milk consumption from ancient human dental calculus. PMID:25429530
Comparison of bacterial culture and 16S rRNA community profiling by clonal analysis and pyrosequencing for the characterization of the dentine caries-associated microbiome. PMID:25429361
Dysbiosis and alterations in predicted functions of the subgingival microbiome in chronic periodontitis. PMID:25398868
Distinct composition of the oral indigenous microbiota in South Korean and Japanese adults. PMID:25384884
The landscape of microRNA, Piwi-interacting RNA, and circular RNA in human saliva. PMID:25376581
The same microbiota and a potentially discriminant metabolome in the saliva of omnivore, ovo-lacto-vegetarian and Vegan individuals. PMID:25372853
Microbial diversity similarities in periodontal pockets and atheromatous plaques of cardiovascular disease patients. PMID:25329160
Minimum entropy decomposition: unsupervised oligotyping for sensitive partitioning of high-throughput marker gene sequences. PMID:25325381
Flexible and accessible workflows for improved proteogenomic analysis using the Galaxy framework. PMID:25301683
Biofilm community diversity after exposure to 0·4% stannous fluoride gels. PMID:25263195
Axenic culture of a candidate division TM7 bacterium from the human oral cavity and biofilm interactions with other oral bacteria. PMID:25107981
Probing of microbial biofilm communities for coadhesion partners. PMID:25107971
Phylogenetics and the human microbiome. PMID:25102857
Identification of the microbiota in carious dentin lesions using 16S rRNA gene sequencing. PMID:25083880
Alterations of the human gut microbiome in liver cirrhosis. PMID:25079328
The cell envelope proteome of Aggregatibacter actinomycetemcomitans. PMID:25055881
Bacteria and bacterial DNA in atherosclerotic plaque and aneurysmal wall biopsies from patients with and without periodontitis. PMID:25006361
Lactobacillus salivarius and L. gasseri down-regulate Aggregatibacter actinomycetemcomitans exotoxins expression. PMID:24860281
Microbial community profiling of human saliva using shotgun metagenomic sequencing. PMID:24846174
Oribacterium parvum sp. nov. and Oribacterium asaccharolyticum sp. nov., obligately anaerobic bacteria from the human oral cavity, and emended description of the genus Oribacterium. PMID:24824639
Influence of DNA extraction on oral microbial profiles obtained via 16S rRNA gene sequencing. PMID:24778776
Microbiota diversity and gene expression dynamics in human oral biofilms. PMID:24767457
NEMiD: a web-based curated microbial diversity database with geo-based plotting. PMID:24714636
Metatranscriptomics of the human oral microbiome during health and disease. PMID:24692635
Supplementary sampling of obturation materials enhances microbial analysis of endodontic treatment failures: a proof of principle study. PMID:24677170
Application of metagenomics in understanding oral health and disease. PMID:24642489
Community-wide transcriptome of the oral microbiome in subjects with and without periodontitis. PMID:24599074
Parallel-META 2.0: enhanced metagenomic data analysis with functional annotation, high performance computing and advanced visualization. PMID:24595159
Pathogens and host immunity in the ancient human oral cavity. PMID:24562188
Identifying Neisseria species by use of the 50S ribosomal protein L6 (rplF) gene. PMID:24523465
Probing oral microbial functionality--expression of spxB in plaque samples. PMID:24489768
An in vitro biofilm model system maintaining a highly reproducible species and metabolic diversity approaching that of the human oral microbiome. PMID:24451062
Transcription profiling reveals potential mechanisms of dysbiosis in the oral microbiome of rhesus macaques with chronic untreated SIV infection. PMID:24312248
A method for selectively enriching microbial DNA from contaminating vertebrate host DNA. PMID:24204593
The role of the human microbiome in otolaryngology-head and neck surgery: a contemporary review. PMID:24178066
Genome-wide relatedness of Treponema pedis, from gingiva and necrotic skin lesions of pigs, with the human oral pathogen Treponema denticola. PMID:23977007
Bacterial community development in experimental gingivitis. PMID:23967169
Comparison of DNA extraction methods in analysis of salivary bacterial communities. PMID:23844068
Rgg-associated SHP signaling peptides mediate cross-talk in Streptococci. PMID:23776602
Expanding the foundation for personalized medicine: implications and challenges for dentistry. PMID:23690361
Oral biofilms: molecular analysis, challenges, and future prospects in dental diagnostics. PMID:23674928
CRISPR regulation of intraspecies diversification by limiting IS transposition and intercellular recombination. PMID:23661565
Investigators' perspectives on translating human microbiome research into clinical practice. PMID:23615375
Investigation of the effect of type 2 diabetes mellitus on subgingival plaque microbiota by high-throughput 16S rDNA pyrosequencing. PMID:23613868
Comparative analysis of oral treponemes associated with periodontal health and disease. PMID:23578286
Lessons learned and unlearned in periodontal microbiology. PMID:23574465
The dental plaque microbiome in health and disease. PMID:23520516
A two-step database search method improves sensitivity in peptide sequence matches for metaproteomics and proteogenomics studies. PMID:23412978
Biogeography of the ecosystems of the healthy human body. PMID:23316946
Species-level classification of the vaginal microbiome. PMID:23282177
Retrospective study of microorganisms associated with vascular access infections in hemodialysis patients. PMID:23217535
Comprehensive analysis of secondary dental root canal infections: a combination of culture and culture-independent approaches reveals new insights. PMID:23152922
MetaSee: an interactive and extendable visualization toolbox for metagenomic sample analysis and comparison. PMID:23145044
Nurture trumps nature in a longitudinal survey of salivary bacterial communities in twins from early adolescence to early adulthood. PMID:23064750
Contribution of phage-derived genomic islands to the virulence of facultative bacterial pathogens. PMID:23035931
Pathogenicity of Treponema denticola Wild-Type and Mutant Strain Tested by an Active Mode of Periodontal Infection Using Microinjection. PMID:22829826
Comparison of oral microbiota in tumor and non-tumor tissues of patients with oral squamous cell carcinoma. PMID:22817758
Description of Alloprevotella rava gen. nov., sp. nov., isolated from the human oral cavity, and reclassification of Prevotella tannerae Moore et al. 1994 as Alloprevotella tannerae gen. nov., comb. nov. PMID:22753527
Evaluation of 16S rDNA-based community profiling for human microbiome research. PMID:22720093
Deep sequencing of the oral microbiome reveals signatures of periodontal disease. PMID:22675498
TaxMan: a server to trim rRNA reference databases and inspect taxonomic coverage. PMID:22618877
Levels of Selenomonas species in generalized aggressive periodontitis. PMID:22612405
Deep metaproteomic analysis of human salivary supernatant. PMID:22522805
The oral-systemic personalized medicine model at Marshfield Clinic. PMID:22458294
Deep sequencing analyses of low density microbial communities: working at the boundary of accurate microbiota detection. PMID:22412957
Identifying low pH active and lactate-utilizing taxa within oral microbiome communities from healthy children using stable isotope probing techniques. PMID:22403637
Discrimination of the oral microbiota associated with high hydrogen sulfide and methyl mercaptan production. PMID:22355729
Analysis of the salivary microbiome using culture-independent techniques. PMID:22300522
Oral microbiome and oral and gastrointestinal cancer risk. PMID:22271008
Impact of supragingival therapy on subgingival microbial profile in smokers versus non-smokers with severe chronic periodontitis. PMID:22232720
Metabolism of sugars by genetically diverse species of oral Leptotrichia. PMID:22230464
Human microbiome and HIV/AIDS. PMID:22193889
New approaches for isolation of previously uncultivated oral bacteria. PMID:22057871
Assessing diversity of the female urine microbiota by high throughput sequencing of 16S rDNA amplicons. PMID:22047020
Identification of Rothia bacteria as gluten-degrading natural colonizers of the upper gastro-intestinal tract. PMID:21957450
Oral colonization by Streptococcus mutans and caries development is reduced upon deletion of carbonic anhydrase VI expression in saliva. PMID:21945428
Polymicrobial periodontal pathogen transcriptomes in calvarial bone and soft tissue. PMID:21896157
High diversity of the saliva microbiome in Batwa Pygmies. PMID:21858083
Oral microbiome profiles: 16S rRNA pyrosequencing and microarray assay comparison. PMID:21829515
The oral metagenome in health and disease. PMID:21716308
Recognition of DNA by the helix-turn-helix global regulatory protein Lrp is modulated by the amino terminus. PMID:21642464
CORE: a phylogenetically-curated 16S rDNA database of the core oral microbiome. PMID:21544197
RNA-oligonucleotide quantification technique (ROQT) for the enumeration of uncultivated bacterial species in subgingival biofilms. PMID:21375703
Systems-level analysis of microbial community organization through combinatorial labeling and spectral imaging. PMID:21325608
Phylogenetic group- and species-specific oligonucleotide probes for single-cell detection of lactic acid bacteria in oral biofilms. PMID:21247450
Airway microbiota and bronchial hyperresponsiveness in patients with suboptimally controlled asthma. PMID:21194740
A streptococcal effector protein that inhibits Porphyromonas gingivalis biofilm development. PMID:20705665
The human oral microbiome. PMID:20656903
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classification
metasource: Fairsharing.org
version: FAIRsharing.org: HOMD; Human Oral Microbiome Database; DOI: https://doi.org/10.25504/FAIRsharing.v3jf2q; Last edited: April 26, 2021, 9:31 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
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metasource: re3data.org
version: re3data.org: eHOMD; editing status 2021-10-05; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMG2 last accessed: 2022-11-04
genomic data
metasource: re3data.org
version: re3data.org: eHOMD; editing status 2021-10-05; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMG2 last accessed: 2022-11-04
human aerpdogestove tract
metasource: re3data.org
version: re3data.org: eHOMD; editing status 2021-10-05; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMG2 last accessed: 2022-11-04
microbiota
metasource: re3data.org
version: re3data.org: eHOMD; editing status 2021-10-05; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMG2 last accessed: 2022-11-04
oral microbiome
metasource: re3data.org
version: re3data.org: eHOMD; editing status 2021-10-05; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMG2 last accessed: 2022-11-04
Tags
More detailed information about this field from each metasource.
classification
metasource: Fairsharing.orgversion: FAIRsharing.org: HOMD; Human Oral Microbiome Database; DOI: https://doi.org/10.25504/FAIRsharing.v3jf2q; Last edited: April 26, 2021, 9:31 a.m.; Last accessed: Jan 03 2022 7:08 p.m.
adt
metasource: re3data.orgversion: re3data.org: eHOMD; editing status 2021-10-05; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMG2 last accessed: 2022-11-04
genomic data
metasource: re3data.orgversion: re3data.org: eHOMD; editing status 2021-10-05; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMG2 last accessed: 2022-11-04
human aerpdogestove tract
metasource: re3data.orgversion: re3data.org: eHOMD; editing status 2021-10-05; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMG2 last accessed: 2022-11-04
microbiota
metasource: re3data.orgversion: re3data.org: eHOMD; editing status 2021-10-05; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMG2 last accessed: 2022-11-04
oral microbiome
metasource: re3data.orgversion: re3data.org: eHOMD; editing status 2021-10-05; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R31NJMG2 last accessed: 2022-11-04
classification adt genomic data human aerpdogestove tract microbiota oral microbiome
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