Malte Rühlemann
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  • Publications
    • P1320 Longitudinal metagenomic profiling reveals early microbial changes during infliximab response in IBD.
    • Bacterial metabolite patterns of infants receiving multi-strain probiotics and risk of late-onset sepsis
    • First insights into microbial changes within an Inflammatory Bowel Disease Family Cohort study
    • Industrialization drives convergent microbial and physiological shifts in the human metaorganism
    • The Fecal Mycobiome in Chronic Pancreatitis Is Characterized by an Increase in Candida species and Nakaseomyces
    • Lower cardiorespiratory fitness is associated with an altered gut microbiome. The Study of Health in Pomerania (SHIP)
    • The C-type lectin receptor MINCLE interferes with eosinophil function and protective intestinal immunity in Strongyloides ratti-infected mice
    • Convergent genomic responses of human gut bacteria to variations in industrialization
    • FIRST INSIGHTS INTO MICROBIAL CHANGES WITHIN AN INFLAMMATORY BOWEL DISEASE FAMILY COHORT STUDY
    • Dietary Diversity, Rather Than Quality, Parallels a Reduction in Metabolic Syndrome and a Favorable Gut Microbiome: The Dietary Diversity Score
    • Fecal glycoprotein 2 is a marker of gut microbiota dysbiosis and systemic inflammation
    • Changes in Periodontal Parameters and Microbiome Composition of Periodontal Pocket in Patients with Chronic Inflammatory Diseases Receiving Targeted Anti-Cytokine Therapy
    • On the limits of 16S rRNA gene-based metagenome prediction and functional profiling
    • The archaeome in metaorganism research, with a focus on marine models and their bacteria–archaea interactions
    • Functional host-specific adaptation of the intestinal microbiome in hominids
    • On the limits of 16S rRNA gene-based metagenome prediction and functional profiling
    • A second update on mapping the human genetic architecture of COVID-19
    • Impaired Abcb1a function and red meat in a translational colitis mouse model induces inflammation and alters microbiota composition
    • Application of Mendelian randomization to explore the causal role of the human gut microbiome in colorectal cancer
    • Comparative genomics of novel Bacteroides acidifaciens isolates reveals candidates for adaptation to host subspecies in house mice
    • Activated regulatory T-cells promote duodenal bacterial translocation into necrotic areas in severe acute pancreatitis
    • Network-based quantitative trait linkage analysis of microbiome composition in inflammatory bowel disease families
    • Exploring the causal role of the human gut microbiome in colorectal cancer: Application of Mendelian randomization
    • Host genetic factors related to innate immunity, environmental sensing and cellular functions are associated with human skin microbiota
    • MAGScoT: a fast, lightweight and accurate bin-refinement tool
    • Detailed stratified GWAS analysis for severe COVID-19 in four European populations
    • Key features of the genetic architecture and evolution of host-microbe interactions revealed by high-resolution genetic mapping of the mucosa-associated gut microbiome in hybrid mice
    • NMR Metabolomics Reveal Urine Markers of Microbiome Diversity and Identify Benzoate Metabolism as a Mediator between High Microbial Alpha Diversity and Metabolic Health
    • Linkage analysis identifies novel genetic modifiers of microbiome traits in families with inflammatory bowel disease
    • Linkage Analysis Identifies Novel Genetic Modifiers of Microbiome Traits in Families with Inflammatory Bowel Disease
    • Targeting the cytoplasmic polyadenylation element-binding protein CPEB4 protects against diet-induced obesity and microbiome dysbiosis
    • Reporting guidelines for human microbiome research: the STORMS checklist
    • Ecology impacts the decrease of Spirochaetes and Prevotella in the fecal gut microbiota of urban humans
    • Mapping the human genetic architecture of COVID-19
    • Short-term physical exercise impacts on the human holobiont obtained by a randomised intervention study
    • Altered Gut Microbial Metabolism of Essential Nutrients in Primary Sclerosing Cholangitis
    • Primate phageomes are structured by superhost phylogeny and environment
    • Carrying asymptomatic gallstones is not associated with changes in intestinal microbiota composition and diversity but cholecystectomy with significant dysbiosis
    • Intestinal protozoan infections shape fecal bacterial microbiota in children from Guinea-Bissau
    • Detailed stratified GWAS analysis for severe COVID-19 in four European populations
    • Exocrine Pancreatic Function Modulates Plasma Metabolites Through Changes in Gut Microbiota Composition
    • Genome-wide association study in 8,956 German individuals identifies influence of ABO histo-blood groups on gut microbiome
    • Intestinal Protozoan Infections Shape Fecal Bacterial Microbiota in Children from Guinea-Bissau.
    • Large-scale association analyses identify host factors influencing human gut microbiome composition
    • Long-term instability of the intestinal microbiome is associated with metabolic liver disease, low microbiota diversity, diabetes mellitus and impaired exocrine pancreatic function
    • Comparative Studies of the Gut Microbiota in the Offspring of Mothers With and Without Gestational Diabetes
    • Genomewide Association Study of Severe Covid-19 with Respiratory Failure
    • Differences in the microbiota of native and non-indigenous gelatinous zooplankton organisms in a low saline environment
    • Genome-wide associations of human gut microbiome variation and implications for causal inference analyses
    • A disease‐specific decline of the relative abundance of Bifidobacterium in patients with autoimmune hepatitis
    • IL-22 Paucity in APECED Is Associated With Mucosal and Microbial Alterations in Oral Cavity
    • A fungal pathogen induces systemic susceptibility and systemic shifts in wheat metabolome and microbiome composition
    • Metagenomic sequencing in primary sclerosing cholangitis highlights microbial metabolism of essential nutrients and multiple altered species
    • Helicobacter pylori infection associates with fecal microbiota composition and diversity
    • Minor compositional alterations in faecal microbiota after five weeks and five months storage at room temperature on filter papers
    • Normal gut microbiome in NMDA receptor encephalitis
    • Gut mycobiome of primary sclerosing cholangitis patients is characterised by an increase ofTrichocladium griseumandCandidaspecies
    • Comparative analysis of amplicon and metagenomic sequencing methods reveals key features in the evolution of animal metaorganisms
    • Obese Individuals with and without Type 2 Diabetes Show Different Gut Microbial Functional Capacity and Composition
    • Hemibiotrophic fungal pathogen induces systemic susceptibility and systemic shifts in wheat metabolome and microbiome composition
    • Pseudomonas aeruginosa populations in the cystic fibrosis lung lose susceptibility to newly applied β-lactams within 3 days
    • Alterations of the bile microbiome in primary sclerosing cholangitis
    • Functions of the Microbiota for the Physiology of Animal Metaorganisms
    • Gestational diabetes is associated with an aberrant gut microbiota during pregnancy and postpartum
    • Functional abdominal pain and discomfort (IBS) is not associated with faecal microbiota composition in the general population
    • Meta-analysis of human genome-microbiome association studies: the MiBioGen consortium initiative
    • Epidermal lipid composition, barrier integrity, and eczematous inflammation are associated with skin microbiome configuration
    • Exocrine Pancreatic Function Determines Major Shifts in Intestinal Microbiota Composition and Diversity
    • Primary Sclerosing Cholangitis Is Characterised By Altered Microbiota of the Bile Fluid Associated to an Altered Bile Acid Composition: Results of a Prospective Single Centre Study
    • Sucrase-isomaltase 15Phe IBS risk variant in relation to dietary carbohydrates and faecal microbiota composition
    • The faecal microbiome of patients with autoimmune hepatitis is characterised by reduced diversity and is different from healthy subjects and patients with ulcerative colitis
    • The faecal microbiome of patients with primary sclerosing cholangitis has a characteristic signature across different geographic regions
    • Application of the distance-based F test in an mGWAS investigating ?? diversity of intestinal microbiota identifies variants in SLC9A8 (NHE8) and 3 other loci
    • Application of the distance-based F test in an mGWAS investigating beta diversity of intestinal microbiota identifies variants in SLC9A8 (NHE8) and three other loci.
    • Cold-induced conversion of cholesterol to bile acids in mice shapes the gut microbiome and promotes adaptive thermogenesis
    • Heart Failure is Associated with Depletion of Core Intestinal Microbiota
    • Heart Failure is associated with Depletion of the intestinal Microbiome
    • NorUDCA improves liver injury and metabolic situation in mouse models of obesity and steatosis
    • Genome-wide association analysis identifies variation in vitamin D receptor and other host factors influencing the gut microbiota
    • Faecal microbiota profiles as diagnostic biomarkers in primary sclerosing cholangitis
    • 1053 Bloom of Fecal Megamonas After a 4 Week High Oral Fructose Challenge Disturbs Energy and Lipid Metabolism: Linking Diet to Microbiota, Bile Acid and Host Metabolism Alterations
    • Dietary and weight loss effects on human gut microbiome diversity and metabolism
    • Interdisciplinary approach towards a systems medicine toolbox using the example of inflammatory diseases
    • Beneficial Effects of a Dietary Weight Loss Intervention on Human Gut Microbiome Diversity and Metabolism Are Not Sustained during Weight Maintenance
    • Heart Failure is Associated With Depletion of Core Intestinal Microbiota
    • Heart Failure is Associated With Depletion of Core Intestinal Microbiota
    • Vy-PER: eliminating false positive detection of virus integration events in next generation sequencing data
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On the limits of 16S rRNA gene-based metagenome prediction and functional profiling

Nov 1, 2023·
Monica Steffi Matchado
,
Malte Rühlemann
,
Sandra Reimeiter
,
Tim Kacprowski
,
Fabian Frost
,
Dirk Haller
,
Jan Baumbach
,
Markus List
· 0 min read
URL DOI
publication
Last updated on Nov 1, 2023
← Functional host-specific adaptation of the intestinal microbiome in hominids Jan 1, 2024
A second update on mapping the human genetic architecture of COVID-19 Sep 1, 2023 →

© 2026 Malte Rühlemann. This work is licensed under CC BY NC ND 4.0

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