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F1000 research, ISSN 2046-1402, 06/2016, Volume 5, pp. 1519 - 1519
Here we present the Cytoscape app version of our association network inference tool CoNet. Though CoNet was developed with microbial community data from... 
Journal Article
Nature reviews. Microbiology, ISSN 1740-1534, 07/2012, Volume 10, Issue 8, pp. 538 - 550
Metagenomics and 16S pyrosequencing have enabled the study of ecosystem structure and dynamics to great depth and accuracy. Co-occurrence and correlation... 
Life Sciences & Biomedicine | Microbiology | Science & Technology | Microbial Interactions | Biota | Humans | Metagenomics - methods | Biological models | Biotic communities | Microorganisms | Models | Research | Ecosystems | Index Medicus
Journal Article
Nature reviews. Microbiology, ISSN 1740-1534, 06/2008, Volume 6, Issue 9, pp. 693 - 699
Systems-biology approaches, which are driven by genome sequencing and high-throughput functional genomics data, are revolutionizing single-cell-organism... 
Models, Theoretical | Systems Biology - methods | Bacteria - growth & development | Bacteria - metabolism | Systems Biology - trends | Ecosystem | Proteomics - methods | Genomics - methods | Bacteria - genetics | Metabolomics - methods | Microbiology - trends | Physiological aspects | Usage | Research | Genes | Computational biology | Index Medicus
Journal Article
The ISME Journal, ISSN 1751-7370, 05/2017, Volume 11, Issue 10, pp. 2159 - 2166
...OPEN PERSPECTIVE Multi-stability and the origin of microbial community types Didier Gonze1, Leo Lahti2,3,4, Jeroen Raes2,3 and Karoline Faust2 1Department... 
Environmental Sciences & Ecology | Ecology | Life Sciences & Biomedicine | Microbiology | Science & Technology | Models, Biological | Microbiota | Ecosystem | Microorganisms | Stability | Local communities | Data interpretation | Environmental conditions | Community composition | Index Medicus
Journal Article
FEMS microbiology reviews, ISSN 1574-6976, 03/2016, Volume 40, Issue 2, pp. 258 - 272
... A. Edwards1,2,3, Katelyn McNair1, Karoline Faust4,5,6, Jeroen Raes4,5,6 and Bas E. Dutilh2,7,8, 1Department of Computer Science, San Diego State University, 5500 Campanile Dr... 
CRISPR | Metagenomics | Co-occurrence | Phages | Viruses of microbes | Oligonucleotide usage | Life Sciences & Biomedicine | Microbiology | Science & Technology | Bacteriophages - genetics | Host-Pathogen Interactions - genetics | Bacteriophages - physiology | Genome, Viral - genetics | Bacteria - virology | Index Medicus | viruses of microbes | co-occurrence | metagenomics | phages | oligonucleotide usage | Editor's Choice | Review
Journal Article
FEMS Microbiology Reviews, ISSN 1574-6976, 08/2017, Volume 41, Issue Supp_1, pp. S154 - S167
Journal Article