Luxembourg Centre for Systems Biomedicine,
Department of life sciences and medicine,
Faculty of Science,
Technology and Medicine,
Department of Life Sciences and Medicine, Faculty of Science, Technology and Medicine
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A biomolecular isolation framework for eco-systems biology.
The ISME journal Jan, 2013 | Pubmed ID: 22763648
Genome sequence of "Candidatus Microthrix parvicella" Bio17-1, a long-chain-fatty-acid-accumulating filamentous actinobacterium from a biological wastewater treatment plant.
Journal of bacteriology Dec, 2012 | Pubmed ID: 23144412
The complex exogenous RNA spectra in human plasma: an interface with human gut biota?
PloS one , 2012 | Pubmed ID: 23251414
Condensing the omics fog of microbial communities.
Trends in microbiology Jul, 2013 | Pubmed ID: 23764387
Sequential isolation of metabolites, RNA, DNA, and proteins from the same unique sample.
Methods in enzymology , 2013 | Pubmed ID: 24060123
From meta-omics to causality: experimental models for human microbiome research.
Microbiome May, 2013 | Pubmed ID: 24450613
A hundred years of activated sludge: time for a rethink.
Frontiers in microbiology , 2014 | Pubmed ID: 24624120
Alignment-free visualization of metagenomic data by nonlinear dimension reduction.
Scientific reports Mar, 2014 | Pubmed ID: 24682077
Systematic design of 18S rRNA gene primers for determining eukaryotic diversity in microbial consortia.
PloS one , 2014 | Pubmed ID: 24755918
Lipid-based biofuel production from wastewater.
Current opinion in biotechnology Dec, 2014 | Pubmed ID: 24768793
Community-integrated omics links dominance of a microbial generalist to fine-tuned resource usage.
Nature communications Nov, 2014 | Pubmed ID: 25424998
The extracellular RNA complement of Escherichia coli.
MicrobiologyOpen Apr, 2015 | Pubmed ID: 25611733
VizBin - an application for reference-independent visualization and human-augmented binning of metagenomic data.
Microbiome , 2015 | Pubmed ID: 25621171
Integrated omics for the identification of key functionalities in biological wastewater treatment microbial communities.
Microbial biotechnology May, 2015 | Pubmed ID: 25678254
A decade of metaproteomics: where we stand and what the future holds.
Proteomics Oct, 2015 | Pubmed ID: 26315987
In situ phenotypic heterogeneity among single cells of the filamentous bacterium Candidatus Microthrix parvicella.
The ISME journal May, 2016 | Pubmed ID: 26505828
Phenotypic differentiation of gastrointestinal microbes is reflected in their encoded metabolic repertoires.
Microbiome Nov, 2015 | Pubmed ID: 26617277
The human gut microbiome in health: establishment and resilience of microbiota over a lifetime.
Environmental microbiology Jul, 2016 | Pubmed ID: 27059297
A microfluidics-based in vitro model of the gastrointestinal human-microbe interface.
Nature communications May, 2016 | Pubmed ID: 27168102
Sources and Functions of Extracellular Small RNAs in Human Circulation.
Annual review of nutrition Jul, 2016 | Pubmed ID: 27215587
Erratum to: Phenotypic differentiation of gastrointestinal microbes is reflected in their encoded metabolic repertoires.
Microbiome Jul, 2016 | Pubmed ID: 27377779
Identification, Recovery, and Refinement of Hitherto Undescribed Population-Level Genomes from the Human Gastrointestinal Tract.
Frontiers in microbiology , 2016 | Pubmed ID: 27445992
Generation of genome-scale metabolic reconstructions for 773 members of the human gut microbiota.
Nature biotechnology Jan, 2017 | Pubmed ID: 27893703
ICoVeR - an interactive visualization tool for verification and refinement of metagenomic bins.
BMC bioinformatics May, 2017 | Pubmed ID: 28464793
Integrated meta-omic analyses of the gastrointestinal tract microbiome in patients undergoing allogeneic hematopoietic stem cell transplantation.
Translational research : the journal of laboratory and clinical medicine Aug, 2017 | Pubmed ID: 28686852
Comparative integrated omics: identification of key functionalities in microbial community-wide metabolic networks.
NPJ biofilms and microbiomes , 2015 | Pubmed ID: 28721231
Ninety-nine de novo assembled genomes from the moose (Alces alces) rumen microbiome provide new insights into microbial plant biomass degradation.
The ISME journal Nov, 2017 | Pubmed ID: 28731473
The nasal and gut microbiome in Parkinson's disease and idiopathic rapid eye movement sleep behavior disorder.
Movement disorders : official journal of the Movement Disorder Society Jan, 2018 | Pubmed ID: 28843021
Measuring soil sustainability via soil resilience.
The Science of the total environment Jun, 2018 | Pubmed ID: 29054651
First draft genome sequence of a strain belonging to the genus and its gene expression in situ.
Standards in genomic sciences , 2017 | Pubmed ID: 29075368
Multi-omics Reveals the Lifestyle of the Acidophilic, Mineral-Oxidizing Model Species Leptospirillum ferriphilum.
Applied and environmental microbiology 02, 2018 | Pubmed ID: 29150517
Human Gut Microbiome: Function Matters.
Trends in microbiology Jul, 2018 | Pubmed ID: 29173869
Extraction and Analysis of RNA Isolated from Pure Bacteria-Derived Outer Membrane Vesicles.
Methods in molecular biology (Clifton, N.J.) , 2018 | Pubmed ID: 29484596
Small RNA profiling of low biomass samples: identification and removal of contaminants.
BMC biology May, 2018 | Pubmed ID: 29759067
Resolving host-microbe interactions in the gut: the promise of in vitro models to complement in vivo research.
Current opinion in microbiology Aug, 2018 | Pubmed ID: 30031243
A year of monitoring 20 mesophilic full-scale bioreactors reveals the existence of stable but different core microbiomes in bio-waste and wastewater anaerobic digestion systems.
Biotechnology for biofuels , 2018 | Pubmed ID: 30038663
Automated Microscopic Analysis of Metal Sulfide Colonization by Acidophilic Microorganisms.
Applied and environmental microbiology 10, 2018 | Pubmed ID: 30076195
Expressed protein profile of a Tectomicrobium and other microbial symbionts in the marine sponge Aplysina aerophoba as evidenced by metaproteomics.
Scientific reports Aug, 2018 | Pubmed ID: 30087358
The RNA Complement of Outer Membrane Vesicles From Serovar Typhimurium Under Distinct Culture Conditions.
Frontiers in microbiology , 2018 | Pubmed ID: 30214435
Sequential Isolation of DNA, RNA, Protein, and Metabolite Fractions from Murine Organs and Intestinal Contents for Integrated Omics of Host-Microbiota Interactions.
Methods in molecular biology (Clifton, N.J.) , 2018 | Pubmed ID: 30259493
Expanding the Use of Spectral Libraries in Proteomics.
Journal of proteome research Dec, 2018 | Pubmed ID: 30270626
The Gut Microbiota and Hematopoietic Stem Cell Transplantation: Challenges and Potentials.
Journal of innate immunity , 2019 | Pubmed ID: 30286447
Dark matter in host-microbiome metabolomics: Tackling the unknowns-A review.
Analytica chimica acta Dec, 2018 | Pubmed ID: 30292286
Birth mode is associated with earliest strain-conferred gut microbiome functions and immunostimulatory potential.
Nature communications Nov, 2018 | Pubmed ID: 30504906
Weak Iron Oxidation by Maintains a Favorable Redox Potential for Chalcopyrite Bioleaching.
Frontiers in microbiology , 2018 | Pubmed ID: 30631311
Deep neural networks outperform human expert's capacity in characterizing bioleaching bacterial biofilm composition.
Biotechnology reports (Amsterdam, Netherlands) Jun, 2019 | Pubmed ID: 30949441
Integrated In Vitro and In Silico Modeling Delineates the Molecular Effects of a Synbiotic Regimen on Colorectal-Cancer-Derived Cells.
Cell reports Apr, 2019 | Pubmed ID: 31042485
Connecting environmental exposure and neurodegeneration using cheminformatics and high resolution mass spectrometry: potential and challenges.
Environmental science. Processes & impacts Sep, 2019 | Pubmed ID: 31305828
Sample Preservation and Storage Significantly Impact Taxonomic and Functional Profiles in Metaproteomics Studies of the Human Gut Microbiome.
Microorganisms Sep, 2019 | Pubmed ID: 31546776
The microbiome-gut-brain axis in acute and chronic brain diseases.
Current opinion in neurobiology Apr, 2020 | Pubmed ID: 31812830
Reverse engineering directed gene regulatory networks from transcriptomics and proteomics data of biomining bacterial communities with approximate Bayesian computation and steady-state signalling simulations.
BMC bioinformatics Jan, 2020 | Pubmed ID: 31964336
Correction for Bellenberg et al., "Automated Microscopic Analysis of Metal Sulfide Colonization by Acidophilic Microorganisms".
Applied and environmental microbiology Jan, 2020 | Pubmed ID: 31964679
Glutathione Restricts Serine Metabolism to Preserve Regulatory T Cell Function.
Cell metabolism May, 2020 | Pubmed ID: 32213345
Microbial Community Redundancy and Resilience Underpins High-Rate Anaerobic Treatment of Dairy-Processing Wastewater at Ambient Temperatures.
Frontiers in bioengineering and biotechnology , 2020 | Pubmed ID: 32232038
Microbiome in Colorectal Cancer: How to Get from Meta-omics to Mechanism?
Trends in microbiology May, 2020 | Pubmed ID: 32298617
Genetic and metabolic links between the murine microbiome and memory.
Microbiome Apr, 2020 | Pubmed ID: 32299497
Correction to: Genetic and metabolic links between the murine microbiome and memory.
Microbiome May, 2020 | Pubmed ID: 32466793
Integrative omics analysis of the termite gut system adaptation to Miscanthus diet identifies lignocellulose degradation enzymes.
Communications biology Jun, 2020 | Pubmed ID: 32483294
Building an international consortium for tracking coronavirus health status.
Nature medicine Aug, 2020 | Pubmed ID: 32488218
Compositional and functional characterisation of biomass-degrading microbial communities in guts of plant fibre- and soil-feeding higher termites.
Microbiome Jun, 2020 | Pubmed ID: 32576253
Publisher Correction: Building an international consortium for tracking coronavirus health status.
Nature medicine Aug, 2020 | Pubmed ID: 32591764
Systems biology of acidophile biofilms for efficient metal extraction.
Scientific data Jul, 2020 | Pubmed ID: 32636389
Integration of time-series meta-omics data reveals how microbial ecosystems respond to disturbance.
Nature communications Oct, 2020 | Pubmed ID: 33077707
Roles of bacteriophages, plasmids and CRISPR immunity in microbial community dynamics revealed using time-series integrated meta-omics.
Nature microbiology Jan, 2021 | Pubmed ID: 33139880
Optimised biomolecular extraction for metagenomic analysis of microbial biofilms from high-mountain streams.
PeerJ , 2020 | Pubmed ID: 33194372
Dichloromethane Degradation Pathway from Unsequenced sp. MC8b Rapidly Explored by Pan-Proteomics.
Microorganisms Nov, 2020 | Pubmed ID: 33260855
Patterns and Drivers of Extracellular Enzyme Activity in New Zealand Glacier-Fed Streams.
Frontiers in microbiology , 2020 | Pubmed ID: 33329472
Extracellular Vesicles Modulate Gut Epithelial Cell Innate Immunity FomA and TLR2.
Frontiers in immunology , 2020 | Pubmed ID: 33408714
IgE-Mediated Peanut Allergy: Current and Novel Predictive Biomarkers for Clinical Phenotypes Using Multi-Omics Approaches.
Frontiers in immunology , 2020 | Pubmed ID: 33584660
PathoFact: a pipeline for the prediction of virulence factors and antimicrobial resistance genes in metagenomic data.
Microbiome Feb, 2021 | Pubmed ID: 33597026
Generalisation of COVID-19 incidences provides a biased view of the actual epidemiological situation.
The Lancet regional health. Europe Jun, 2021 | Pubmed ID: 33937902
SARS-CoV-2 transmission in educational settings during an early summer epidemic wave in Luxembourg, 2020.
BMC infectious diseases May, 2021 | Pubmed ID: 33947340
Unification of functional annotation descriptions using text mining.
Biological chemistry Jul, 2021 | Pubmed ID: 33984880
SARS-CoV-2 transmission risk from asymptomatic carriers: Results from a mass screening programme in Luxembourg.
The Lancet regional health. Europe May, 2021 | Pubmed ID: 33997830
Mantis: flexible and consensus-driven genome annotation.
GigaScience Jun, 2021 | Pubmed ID: 34076241
Challenges, Strategies, and Perspectives for Reference-Independent Longitudinal Multi-Omic Microbiome Studies.
Frontiers in genetics , 2021 | Pubmed ID: 34194470
Emulating the gut-liver axis: Dissecting the microbiome's effect on drug metabolism using multiorgan-on-chip models.
Current opinion in endocrine and metabolic research Jun, 2021 | Pubmed ID: 34239997
Microdiversity characterizes prevalent phylogenetic clades in the glacier-fed stream microbiome.
The ISME journal Mar, 2022 | Pubmed ID: 34522009
Reporting guidelines for human microbiome research: the STORMS checklist.
Nature medicine Nov, 2021 | Pubmed ID: 34789871
Critical Assessment of MetaProteome Investigation (CAMPI): a multi-laboratory comparison of established workflows.
Nature communications Dec, 2021 | Pubmed ID: 34911965
The Metaproteomics Initiative: a coordinated approach for propelling the functional characterization of microbiomes.
Microbiome Dec, 2021 | Pubmed ID: 34930457
The benefits, costs and feasibility of a low incidence COVID-19 strategy.
The Lancet regional health. Europe Feb, 2022 | Pubmed ID: 35005678
Systematic characterization of human gut microbiome-secreted molecules by integrated multi-omics.
ISME communications Dec, 2021 | Pubmed ID: 35106519
Glacier shrinkage will accelerate downstream decomposition of organic matter and alters microbiome structure and function.
Global change biology Jun, 2022 | Pubmed ID: 35320603
The gut microbial metabolite formate exacerbates colorectal cancer progression.
Nature metabolism Apr, 2022 | Pubmed ID: 35437333
Genomic and metabolic adaptations of biofilms to ecological windows of opportunity in glacier-fed streams.
Nature communications Apr, 2022 | Pubmed ID: 35444202
Toward hypothesis-driven, personalized microbiome screening.
Cell reports methods Jan, 2022 | Pubmed ID: 35474872
Combinatorial analysis reveals highly coordinated early-stage immune reactions that predict later antiviral immunity in mild COVID-19 patients.
Cell reports. Medicine Apr, 2022 | Pubmed ID: 35480624
Evolution of the murine gut resistome following broad-spectrum antibiotic treatment.
Nature communications Apr, 2022 | Pubmed ID: 35484157
The microbiome of cryospheric ecosystems.
Nature communications Jun, 2022 | Pubmed ID: 35655063
Studying the Parkinson's disease metabolome and exposome in biological samples through different analytical and cheminformatics approaches: a pilot study.
Analytical and bioanalytical chemistry Oct, 2022 | Pubmed ID: 35829770
Long COVID Symptomatology After 12 Months and Its Impact on Quality of Life According to Initial Coronavirus Disease 2019 Disease Severity.
Open forum infectious diseases Aug, 2022 | Pubmed ID: 35983269
The gut microbiome molecular complex in human health and disease.
Cell host & microbe Sep, 2022 | Pubmed ID: 36108612
SnapShot: The Expobiome Map.
Cell host & microbe Sep, 2022 | Pubmed ID: 36108614
Mobilome-driven segregation of the resistome in biological wastewater treatment.
eLife Sep, 2022 | Pubmed ID: 36111782
Disease Progression, Resilience, and Inflammation Markers During the Coronavirus Disease 2019 Pandemic in Parkinson's Disease.
Movement disorders : official journal of the Movement Disorder Society Nov, 2022 | Pubmed ID: 36148927
binny: an automated binning algorithm to recover high-quality genomes from complex metagenomic datasets.
Briefings in bioinformatics Nov, 2022 | Pubmed ID: 36239393
Long COVID Classification: Findings from a Clustering Analysis in the Predi-COVID Cohort Study.
International journal of environmental research and public health Nov, 2022 | Pubmed ID: 36498091
Alterations of oral microbiota and impact on the gut microbiome in type 1 diabetes mellitus revealed by integrated multi-omic analyses.
Microbiome Dec, 2022 | Pubmed ID: 36578059
Glacier-Fed Stream Biofilms Harbor Diverse Resistomes and Biosynthetic Gene Clusters.
Microbiology spectrum Feb, 2023 | Pubmed ID: 36688698
Persistence of birth mode-dependent effects on gut microbiome composition, immune system stimulation and antimicrobial resistance during the first year of life.
ISME communications Mar, 2021 | Pubmed ID: 36717704
Altered infective competence of the human gut microbiome in COVID-19.
Microbiome Mar, 2023 | Pubmed ID: 36894986
Reservoirs of antimicrobial resistance in the context of One Health.
Current opinion in microbiology Jun, 2023 | Pubmed ID: 36913905
Lower gastric sensitivity in quiescent inflammatory bowel disease than in irritable bowel syndrome.
Physiology & behavior Jul, 2023 | Pubmed ID: 37468056
Spatio-functional organization in virocells of small uncultivated archaea from the deep biosphere.
The ISME journal Jul, 2023 | Pubmed ID: 37468677
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