Alignment-free Visualization of Metagenomic Data by Nonlinear Dimension Reduction

by Laczny, Cedric C., Pinel, Nicolás, Vlassis, Nikos, Wilmes, Paul
Published 2014

BusyBee Web: metagenomic data analysis by bootstrapped supervised binning and annotation

by Laczny, Cedric C., Kiefer, Christina, Galata, Valentina, Fehlmann, Tobias, Backes, Christina, Keller, Andreas
Published in Nucleic Acids Res (2017)

VizBin - an application for reference-independent visualization and human-augmented binning of metagenomic data

by Laczny, Cedric C, Sternal, Tomasz, Plugaru, Valentin, Gawron, Piotr, Atashpendar, Arash, Margossian, Houry Hera, Coronado, Sergio, der Maaten, Laurens van, Vlassis, Nikos, Wilmes, Paul
Published in Microbiome (2015)

Identification, Recovery, and Refinement of Hitherto Undescribed Population-Level Genomes from the Human Gastrointestinal Tract

by Laczny, Cedric C., Muller, Emilie E. L., Heintz-Buschart, Anna, Herold, Malte, Lebrun, Laura A., Hogan, Angela, May, Patrick, de Beaufort, Carine, Wilmes, Paul
Published in Front Microbiol (2016)

IMP: a pipeline for reproducible reference-independent integrated metagenomic and metatranscriptomic analyses

by Narayanasamy, Shaman, Jarosz, Yohan, Muller, Emilie E. L., Heintz-Buschart, Anna, Herold, Malte, Kaysen, Anne, Laczny, Cédric C., Pinel, Nicolás, May, Patrick, Wilmes, Paul
Published in Genome Biol (2016)

Comparison of initial oral microbiomes of young adults with and without cavitated dentin caries lesions using an in situ biofilm model

by Rupf, Stefan, Laczny, Cedric C., Galata, Valentina, Backes, Christina, Keller, Andreas, Umanskaya, Natalia, Erol, Arzu, Tierling, Sascha, Lo Porto, Christina, Walter, Jörn, Kirsch, Jasmin, Hannig, Matthias, Hannig, Christian
Published in Sci Rep (2018)

First draft genome sequence of a strain belonging to the Zoogloea genus and its gene expression in situ

by Muller, Emilie E. L., Narayanasamy, Shaman, Zeimes, Myriam, Laczny, Cédric C., Lebrun, Laura A., Herold, Malte, Hicks, Nathan D., Gillece, John D., Schupp, James M., Keim, Paul, Wilmes, Paul
Published in Stand Genomic Sci (2017)

Colonization and Succession within the Human Gut Microbiome by Archaea, Bacteria, and Microeukaryotes during the First Year of Life

by Wampach, Linda, Heintz-Buschart, Anna, Hogan, Angela, Muller, Emilie E. L., Narayanasamy, Shaman, Laczny, Cedric C., Hugerth, Luisa W., Bindl, Lutz, Bottu, Jean, Andersson, Anders F., de Beaufort, Carine, Wilmes, Paul
Published in Front Microbiol (2017)

Dichloromethane Degradation Pathway from Unsequenced Hyphomicrobium sp. MC8b Rapidly Explored by Pan-Proteomics

by Hayoun, Karim, Geersens, Emilie, Laczny, Cédric C., Halder, Rashi, Lázaro Sánchez, Carmen, Manna, Abhijit, Bringel, Françoise, Ryckelynck, Michaël, Wilmes, Paul, Muller, Emilie E. L., Alpha-Bazin, Béatrice, Armengaud, Jean, Vuilleumier, Stéphane
Published in Microorganisms (2020)

Integrating Culture-based Antibiotic Resistance Profiles with Whole-genome Sequencing Data for 11,087 Clinical Isolates

by Galata, Valentina, Laczny, Cédric C., Backes, Christina, Hemmrich-Stanisak, Georg, Schmolke, Susanne, Franke, Andre, Meese, Eckart, Herrmann, Mathias, von Müller, Lutz, Plum, Achim, Müller, Rolf, Stähler, Cord, Posch, Andreas E., Keller, Andreas
Published in Genomics Proteomics Bioinformatics (2019)

Systematic characterization of human gut microbiome-secreted molecules by integrated multi-omics

by De Saedeleer, Bianca, Malabirade, Antoine, Ramiro-Garcia, Javier, Habier, Janine, Trezzi, Jean-Pierre, Peters, Samantha L., Daujeumont, Annegrät, Halder, Rashi, Jäger, Christian, Busi, Susheel Bhanu, May, Patrick, Oertel, Wolfgang, Mollenhauer, Brit, Laczny, Cédric C., Hettich, Robert L., Wilmes, Paul
Published in ISME Commun (2021)

Comparative integrated omics: identification of key functionalities in microbial community-wide metabolic networks

by Roume, Hugo, Heintz-Buschart, Anna, Muller, Emilie E L, May, Patrick, Satagopam, Venkata P, Laczny, Cédric C, Narayanasamy, Shaman, Lebrun, Laura A, Hoopmann, Michael R, Schupp, James M, Gillece, John D, Hicks, Nathan D, Engelthaler, David M, Sauter, Thomas, Keim, Paul S, Moritz, Robert L, Wilmes, Paul
Published in NPJ Biofilms Microbiomes (2015)

Community-integrated omics links dominance of a microbial generalist to fine-tuned resource usage

by Muller, Emilie E. L., Pinel, Nicolás, Laczny, Cédric C., Hoopmann, Michael R., Narayanasamy, Shaman, Lebrun, Laura A., Roume, Hugo, Lin, Jake, May, Patrick, Hicks, Nathan D., Heintz-Buschart, Anna, Wampach, Linda, Liu, Cindy M., Price, Lance B., Gillece, John D., Guignard, Cédric, Schupp, James M., Vlassis, Nikos, Baliga, Nitin S., Moritz, Robert L., Keim, Paul S., Wilmes, Paul
Published in Nat Commun (2014)

Roles of bacteriophages, plasmids and CRISPR immunity in microbial community dynamics revealed using time-series integrated meta-omics

by Martínez Arbas, Susana, Narayanasamy, Shaman, Herold, Malte, Lebrun, Laura A., Hoopmann, Michael R., Li, Sujun, Lam, Tony J., Kunath, Benoît J., Hicks, Nathan D., Liu, Cindy M., Price, Lance B., Laczny, Cedric C., Gillece, John D., Schupp, James M., Keim, Paul S., Moritz, Robert L., Faust, Karoline, Tang, Haixu, Ye, Yuzhen, Skupin, Alexander, May, Patrick, Muller, Emilie E. L., Wilmes, Paul
Published in Nat Microbiol (2020)

Integration of time-series meta-omics data reveals how microbial ecosystems respond to disturbance

by Herold, Malte, Martínez Arbas, Susana, Narayanasamy, Shaman, Sheik, Abdul R., Kleine-Borgmann, Luise A. K., Lebrun, Laura A., Kunath, Benoît J., Roume, Hugo, Bessarab, Irina, Williams, Rohan B. H., Gillece, John D., Schupp, James M., Keim, Paul S., Jäger, Christian, Hoopmann, Michael R., Moritz, Robert L., Ye, Yuzhen, Li, Sujun, Tang, Haixu, Heintz-Buschart, Anna, May, Patrick, Muller, Emilie E. L., Laczny, Cedric C., Wilmes, Paul
Published in Nat Commun (2020)