☰

Karoline Faust - Publications

Affiliations: 
VIB Department of Molecular and Cellular Vrije Universiteit Brussel, Elsene, Brussels Hoofdstedelijk Gewest, Belgium 
Tree Info Similar researchers PubMed Report error

54 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2022 van de Velde CC, Joseph C, Biclot A, Huys GRB, Pinheiro VB, Bernaerts K, Raes J, Faust K. Fast quantification of gut bacterial species in cocultures using flow cytometry and supervised classification. Isme Communications. 2: 40. PMID 37938658 DOI: 10.1038/s43705-022-00123-6  0.529
2022 van de Velde C, Joseph C, Simoens K, Raes J, Bernaerts K, Faust K. Technical versus biological variability in a synthetic human gut community. Gut Microbes. 15: 2155019. PMID 36580382 DOI: 10.1080/19490976.2022.2155019  0.568
2022 Beller L, Deboutte W, Vieira-Silva S, Falony G, Tito RY, Rymenans L, Yinda CK, Vanmechelen B, Van Espen L, Jansen D, Shi C, Zeller M, Maes P, Faust K, Van Ranst M, et al. The virota and its transkingdom interactions in the healthy infant gut. Proceedings of the National Academy of Sciences of the United States of America. 119: e2114619119. PMID 35320047 DOI: 10.1073/pnas.2114619119  0.661
2021 Röttjers L, Vandeputte D, Raes J, Faust K. Null-model-based network comparison reveals core associations. Isme Communications. 1: 36. PMID 37938641 DOI: 10.1038/s43705-021-00036-w  0.541
2021 Deutschmann IM, Lima-Mendez G, Krabberød AK, Raes J, Vallina SM, Faust K, Logares R. Correction to: Disentangling environmental effects in microbial association networks. Microbiome. 9: 245. PMID 34933691 DOI: 10.1186/s40168-021-01209-4  0.518
2021 Beller L, Deboutte W, Falony G, Vieira-Silva S, Tito RY, Valles-Colomer M, Rymenans L, Jansen D, Van Espen L, Papadaki MI, Shi C, Yinda CK, Zeller M, Faust K, Van Ranst M, et al. Successional Stages in Infant Gut Microbiota Maturation. Mbio. 12: e0185721. PMID 34903050 DOI: 10.1128/mBio.01857-21  0.672
2021 Gryp T, Faust K, Van Biesen W, Huys GRB, Verbeke F, Speeckaert M, Raes J, Vaneechoutte M, Joossens M, Glorieux G. Gut Microbiome Profiling Uncovers a Lower Abundance of in Advanced Stages of Chronic Kidney Disease. Journal of Personalized Medicine. 11. PMID 34834470 DOI: 10.3390/jpm11111118  0.477
2021 Deutschmann IM, Lima-Mendez G, Krabberød AK, Raes J, Vallina SM, Faust K, Logares R. Disentangling environmental effects in microbial association networks. Microbiome. 9: 232. PMID 34823593 DOI: 10.1186/s40168-021-01141-7  0.536
2021 Vandeputte D, De Commer L, Tito RY, Kathagen G, Sabino J, Vermeire S, Faust K, Raes J. Temporal variability in quantitative human gut microbiome profiles and implications for clinical research. Nature Communications. 12: 6740. PMID 34795283 DOI: 10.1038/s41467-021-27098-7  0.521
2021 Cao X, Zhao D, Li C, Röttjers L, Faust K, Zhang H. Regime transition Shapes the Composition, Assembly Processes, and Co-occurrence Pattern of Bacterioplankton Community in a Large Eutrophic Freshwater Lake. Microbial Ecology. PMID 34585289 DOI: 10.1007/s00248-021-01878-6  0.322
2020 Martínez Arbas S, Narayanasamy S, Herold M, Lebrun LA, Hoopmann MR, Li S, Lam TJ, Kunath BJ, Hicks ND, Liu CM, Price LB, Laczny CC, Gillece JD, Schupp JM, Keim PS, ... ... Faust K, et al. Roles of bacteriophages, plasmids and CRISPR immunity in microbial community dynamics revealed using time-series integrated meta-omics. Nature Microbiology. PMID 33139880 DOI: 10.1038/s41564-020-00794-8  0.367
2020 Ma B, Wang Y, Ye S, Liu S, Stirling E, Gilbert JA, Faust K, Knight R, Jansson JK, Cardona C, Röttjers L, Xu J. Earth microbial co-occurrence network reveals interconnection pattern across microbiomes. Microbiome. 8: 82. PMID 32498714 DOI: 10.1186/S40168-020-00857-2  0.479
2019 D'hoe K, Vet S, Faust K, Moens F, Falony G, Gonze D, Lloréns-Rico V, Gelens L, Danckaert J, De Vuyst L, Raes J. Correction: Integrated culturing, modeling and transcriptomics uncovers complex interactions and emergent behavior in a three-species synthetic gut community. Elife. 8. PMID 31682225 DOI: 10.7554/Elife.53217  0.699
2019 Vrancken G, Gregory AC, Huys GRB, Faust K, Raes J. Synthetic ecology of the human gut microbiota. Nature Reviews. Microbiology. PMID 31578461 DOI: 10.1038/S41579-019-0264-8  0.608
2019 McBain AJ, O'Neill CA, Amezquita A, Price LJ, Faust K, Tett A, Segata N, Swann JR, Smith AM, Murphy B, Hoptroff M, James G, Reddy Y, Dasgupta A, Ross T, et al. Consumer Safety Considerations of Skin and Oral Microbiome Perturbation. Clinical Microbiology Reviews. 32. PMID 31366612 DOI: 10.1128/Cmr.00051-19  0.324
2019 Faust K. Towards a Better Understanding of Microbial Community Dynamics through High-Throughput Cultivation and Data Integration. Msystems. 4. PMID 31138719 DOI: 10.1128/mSystems.00101-19  0.312
2019 Goetghebuer L, Bonal M, Faust K, Servais P, George IF. The Dynamic of a River Model Bacterial Community in Two Different Media Reveals a Divergent Succession and an Enhanced Growth of Most Strains Compared to Monocultures. Microbial Ecology. PMID 30680433 DOI: 10.1007/S00248-019-01322-W  0.346
2018 Joossens M, Faust K, Gryp T, Nguyen ATL, Wang J, Eloot S, Schepers E, Dhondt A, Pletinck A, Vieira-Silva S, Falony G, Vaneechoutte M, Vanholder R, Van Biesen W, Huys GRB, et al. Gut microbiota dynamics and uraemic toxins: one size does not fit all. Gut. PMID 30464044 DOI: 10.1136/Gutjnl-2018-317561  0.691
2018 D'hoe K, Vet S, Faust K, Moens F, Falony G, Gonze D, Lloréns-Rico V, Gelens L, Danckaert J, De Vuyst L, Raes J. Integrated culturing, modeling and transcriptomics uncovers complex interactions and emergent behavior in a three-species synthetic gut community. Elife. 7. PMID 30322445 DOI: 10.7554/Elife.37090  0.705
2018 Röttjers L, Faust K. From hairballs to hypotheses - biological insights from microbial networks. Fems Microbiology Reviews. PMID 30085090 DOI: 10.1093/femsre/fuy030  0.333
2018 Röttjers L, Faust K. From hairballs to hypotheses - biological insights from microbial networks. Fems Microbiology Reviews. PMID 30085090 DOI: 10.1093/Femsre/Fuy030  0.439
2018 Ma B, Zhao K, Lv X, Su W, Dai Z, Gilbert JA, Brookes PC, Faust K, Xu J. Genetic correlation network prediction of forest soil microbial functional organization. The Isme Journal. PMID 30046166 DOI: 10.1038/S41396-018-0232-8  0.358
2018 Gonze D, Coyte KZ, Lahti L, Faust K. Microbial communities as dynamical systems. Current Opinion in Microbiology. 44: 41-49. PMID 30041083 DOI: 10.1016/J.Mib.2018.07.004  0.403
2018 Faust K, Bauchinger F, Laroche B, de Buyl S, Lahti L, Washburne AD, Gonze D, Widder S. Signatures of ecological processes in microbial community time series. Microbiome. 6: 120. PMID 29954432 DOI: 10.1186/S40168-018-0496-2  0.429
2018 Parente E, Zotta T, Faust K, De Filippis F, Ercolini D. Structure of association networks in food bacterial communities. Food Microbiology. 73: 49-60. PMID 29526226 DOI: 10.1016/J.Fm.2017.12.010  0.459
2018 Muller EEL, Faust K, Widder S, Herold M, Arbas SM, Wilmes P. Using metabolic networks to resolve ecological properties of microbiomes Current Opinion in Systems Biology. 8: 73-80. DOI: 10.1016/J.Coisb.2017.12.004  0.44
2017 Gonze D, Lahti L, Raes J, Faust K. Multi-stability and the origin of microbial community types. The Isme Journal. PMID 28475180 DOI: 10.1038/Ismej.2017.60  0.582
2017 Wang H, Wei Z, Mei L, Gu J, Yin S, Faust K, Raes J, Deng Y, Wang Y, Shen Q, Yin S. Combined use of network inference tools identifies ecologically meaningful bacterial associations in a paddy soil Soil Biology and Biochemistry. 105: 227-235. DOI: 10.1016/J.Soilbio.2016.11.029  0.61
2016 Pérez-Valera E, Goberna M, Faust K, Raes J, García C, Verdú M. Fire modifies the phylogenetic structure of soil bacterial co-occurrence networks. Environmental Microbiology. PMID 27871135 DOI: 10.1111/1462-2920.13609  0.607
2016 Faust K, Raes J. CoNet app: inference of biological association networks using Cytoscape. F1000research. 5: 1519. PMID 27853510 DOI: 10.12688/F1000Research.9050.2  0.597
2016 Bálint M, Bahram M, Eren AM, Faust K, Fuhrman JA, Lindahl B, O'Hara RB, Öpik M, Sogin ML, Unterseher M, Tedersoo L. Millions of reads, thousands of taxa: microbial community structure and associations analyzed via marker genes. Fems Microbiology Reviews. PMID 27358393 DOI: 10.1093/Femsre/Fuw017  0.378
2016 Günther S, Faust K, Schumann J, Harms H, Raes J, Müller S. Species-sorting and mass-transfer paradigms control managed natural metacommunities. Environmental Microbiology. PMID 27338005 DOI: 10.1111/1462-2920.13402  0.586
2016 Faust K, Raes J. Host-microbe interaction: Rules of the game for microbiota. Nature. 534: 182-3. PMID 27279206 DOI: 10.1038/534182A  0.586
2016 Mattiello F, Verbist B, Faust K, Raes J, Shannon WD, Bijnens L, Thas O. A web application for sample size and power calculation in case-control microbiome studies. Bioinformatics (Oxford, England). PMID 27153704 DOI: 10.1093/Bioinformatics/Btw099  0.506
2016 Falony G, Joossens M, Vieira-Silva S, Wang J, Darzi Y, Faust K, Kurilshikov A, Bonder MJ, Valles-Colomer M, Vandeputte D, Tito RY, Chaffron S, Rymenans L, Verspecht C, De Sutter L, et al. Population-level analysis of gut microbiome variation. Science (New York, N.Y.). 352: 560-4. PMID 27126039 DOI: 10.1126/Science.Aad3503  0.701
2016 Weiss S, Van Treuren W, Lozupone C, Faust K, Friedman J, Deng Y, Xia LC, Xu ZZ, Ursell L, Alm EJ, Birmingham A, Cram JA, Fuhrman JA, Raes J, Sun F, et al. Correlation detection strategies in microbial data sets vary widely in sensitivity and precision. The Isme Journal. PMID 26905627 DOI: 10.1038/Ismej.2015.235  0.594
2015 Edwards RA, McNair K, Faust K, Raes J, Dutilh BE. Computational approaches to predict bacteriophage-host relationships. Fems Microbiology Reviews. PMID 26657537 DOI: 10.1093/Femsre/Fuv048  0.541
2015 Faust K, Lima-Mendez G, Lerat JS, Sathirapongsasuti JF, Knight R, Huttenhower C, Lenaerts T, Raes J. Cross-biome comparison of microbial association networks. Frontiers in Microbiology. 6: 1200. PMID 26579106 DOI: 10.3389/Fmicb.2015.01200  0.632
2015 Faust K, Lahti L, Gonze D, de Vos WM, Raes J. Metagenomics meets time series analysis: unraveling microbial community dynamics. Current Opinion in Microbiology. 25: 56-66. PMID 26005845 DOI: 10.1016/J.Mib.2015.04.004  0.622
2015 Lima-Mendez G, Faust K, Henry N, Decelle J, Colin S, Carcillo F, Chaffron S, Ignacio-Espinosa JC, Roux S, Vincent F, Bittner L, Darzi Y, Wang J, Audic S, Berline L, et al. Ocean plankton. Determinants of community structure in the global plankton interactome. Science (New York, N.Y.). 348: 1262073. PMID 25999517 DOI: 10.1126/Science.1262073  0.666
2015 Navarrete AA, Tsai SM, Mendes LW, Faust K, de Hollander M, Cassman NA, Raes J, van Veen JA, Kuramae EE. Soil microbiome responses to the short-term effects of Amazonian deforestation. Molecular Ecology. 24: 2433-48. PMID 25809788 DOI: 10.1111/Mec.13172  0.523
2014 Faust K, Raes J. Comparative analysis of biome-specific microbial association networks F1000research. 5. DOI: 10.7490/F1000Research.1094770.1  0.57
2013 Hingamp P, Grimsley N, Acinas SG, Clerissi C, Subirana L, Poulain J, Ferrera I, Sarmento H, Villar E, Lima-Mendez G, Faust K, Sunagawa S, Claverie JM, Moreau H, Desdevises Y, et al. Exploring nucleo-cytoplasmic large DNA viruses in Tara Oceans microbial metagenomes. The Isme Journal. 7: 1678-95. PMID 23575371 DOI: 10.1038/Ismej.2013.59  0.628
2012 Faust K, Sathirapongsasuti JF, Izard J, Segata N, Gevers D, Raes J, Huttenhower C. Microbial co-occurrence relationships in the human microbiome. Plos Computational Biology. 8: e1002606. PMID 22807668 DOI: 10.1371/Journal.Pcbi.1002606  0.635
2012 Faust K, Raes J. Microbial interactions: from networks to models. Nature Reviews. Microbiology. 10: 538-50. PMID 22796884 DOI: 10.1038/Nrmicro2832  0.603
2012 Methé BA, Nelson KE, Pop M, Creasy HH, Giglio MG, Huttenhower C, Gevers D, Petrosino JF, Abubucker S, Badger JH, Chinwalla AT, Earl AM, Fitzgerald MG, Fulton RS, Hallsworth-Pepin K, ... ... Faust K, et al. A framework for human microbiome research Nature. 486: 215-221. PMID 22699610 DOI: 10.1038/Nature11209  0.383
2012 Huttenhower C, Gevers D, Knight R, Abubucker S, Badger JH, Chinwalla AT, Creasy HH, Earl AM, Fitzgerald MG, Fulton RS, Giglio MG, Hallsworth-Pepin K, Lobos EA, Madupu R, Magrini V, ... ... Faust K, et al. Structure, function and diversity of the healthy human microbiome Nature. 486: 207-214. PMID 22699609 DOI: 10.1038/Nature11234  0.445
2012 Lozupone C, Faust K, Raes J, Faith JJ, Frank DN, Zaneveld J, Gordon JI, Knight R. Identifying genomic and metabolic features that can underlie early successional and opportunistic lifestyles of human gut symbionts. Genome Research. 22: 1974-84. PMID 22665442 DOI: 10.1101/Gr.138198.112  0.609
2012 Faust K, van Helden J. Predicting metabolic pathways by sub-network extraction. Methods in Molecular Biology (Clifton, N.J.). 804: 107-30. PMID 22144151 DOI: 10.1007/978-1-61779-361-5_7  0.31
2011 Faust K, Croes D, van Helden J. Prediction of metabolic pathways from genome-scale metabolic networks. Bio Systems. 105: 109-21. PMID 21645586 DOI: 10.1016/J.Biosystems.2011.05.004  0.323
2010 Faust K, Dupont P, Callut J, van Helden J. Pathway discovery in metabolic networks by subgraph extraction. Bioinformatics (Oxford, England). 26: 1211-8. PMID 20228128 DOI: 10.1093/Bioinformatics/Btq105  0.335
2009 Faust K, Croes D, van Helden J. In response to 'Can sugars be produced from fatty acids? A test case for pathway analysis tools'. Bioinformatics (Oxford, England). 25: 3202-5. PMID 19776213 DOI: 10.1093/Bioinformatics/Btp557  0.302
2009 Faust K, Croes D, van Helden J. Metabolic pathfinding using RPAIR annotation. Journal of Molecular Biology. 388: 390-414. PMID 19281817 DOI: 10.1016/J.Jmb.2009.03.006  0.323
2008 Brohée S, Faust K, Lima-Mendez G, Vanderstocken G, van Helden J. Network Analysis Tools: from biological networks to clusters and pathways. Nature Protocols. 3: 1616-29. PMID 18802442 DOI: 10.1038/Nprot.2008.100  0.314
Show low-probability matches.