Hierarchical sets: analyzing pangenome structure through scalable set visualizations
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[1] Rene S. Hendriksen,et al. The Salmonella enterica Pan-genome , 2011, Microbial Ecology.
[2] I. Nookaew,et al. Diversity of Pseudomonas Genomes, Including Populus-Associated Isolates, as Revealed by Comparative Genome Analysis , 2015, Applied and Environmental Microbiology.
[3] Tetsuya Hayashi,et al. Defining the Genome Features of Escherichia albertii, an Emerging Enteropathogen Closely Related to Escherichia coli , 2015, Genome biology and evolution.
[4] Masahira Hattori,et al. Comparative genomics reveal the mechanism of the parallel evolution of O157 and non-O157 enterohemorrhagic Escherichia coli , 2009, Proceedings of the National Academy of Sciences.
[5] Fredrik H. Karlsson,et al. A Closer Look at Bacteroides: Phylogenetic Relationship and Genomic Implications of a Life in the Human Gut , 2011, Microbial Ecology.
[6] Hanspeter Pfister,et al. UpSet: Visualization of Intersecting Sets , 2014, IEEE Transactions on Visualization and Computer Graphics.
[7] Intawat Nookaew,et al. PanViz: interactive visualization of the structure of functionally annotated pangenomes , 2016, Bioinform..
[8] Robert Kosara,et al. GenoSets: Visual Analytic Methods for Comparative Genomics , 2012, PloS one.
[9] Keith A. Jolley,et al. A Reference Pan-Genome Approach to Comparative Bacterial Genomics: Identification of Novel Epidemiological Markers in Pathogenic Campylobacter , 2014, PloS one.
[10] R Core Team,et al. R: A language and environment for statistical computing. , 2014 .
[11] D. Ussery,et al. Comparative Genomics of Bifidobacterium, Lactobacillus and Related Probiotic Genera , 2011, Microbial Ecology.
[12] Carsten Friis,et al. Estimating variation within the genes and inferring the phylogeny of 186 sequenced diverse Escherichia coli genomes , 2012, BMC Genomics.
[13] Silvia Miksch,et al. Radial Sets: Interactive Visual Analysis of Large Overlapping Sets , 2013, IEEE Transactions on Visualization and Computer Graphics.
[14] Jinghua Yang,et al. Structural and Genetic Characterization of the Shigella boydii Type 13 O Antigen , 2004, Journal of bacteriology.
[15] G. Weinstock,et al. Phylogenomics and the Dynamic Genome Evolution of the Genus Streptococcus , 2014, Genome biology and evolution.
[16] Gilles Bisson,et al. Dendrogramix: A hybrid tree-matrix visualization technique to support interactive exploration of dendrograms , 2015, 2015 IEEE Pacific Visualization Symposium (PacificVis).
[17] R. Siezen,et al. Lactobacillus paracasei Comparative Genomics: Towards Species Pan-Genome Definition and Exploitation of Diversity , 2013, PloS one.
[18] G. Pupo,et al. Multiple independent origins of Shigella clones of Escherichia coli and convergent evolution of many of their characteristics. , 2000, Proceedings of the National Academy of Sciences of the United States of America.
[19] Sung-Hou Kim,et al. Whole-genome phylogeny of Escherichia coli/Shigella group by feature frequency profiles (FFPs) , 2011, Proceedings of the National Academy of Sciences.
[20] I. Nookaew,et al. Insights from 20 years of bacterial genome sequencing , 2015, Functional & Integrative Genomics.
[21] Danny Holten,et al. Hierarchical Edge Bundles: Visualization of Adjacency Relations in Hierarchical Data , 2006, IEEE Transactions on Visualization and Computer Graphics.
[22] D. Ussery,et al. Comparison of 61 Sequenced Escherichia coli Genomes , 2010, Microbial Ecology.
[23] D. Ussery,et al. A domain sequence approach to pangenomics: applications to Escherichia coli , 2012, F1000Research.
[24] Zhao Xu,et al. Shigella Strains Are Not Clones of Escherichia coli but Sister Species in the Genus Escherichia , 2012, Genom. Proteom. Bioinform..
[25] Daniel J. Wilson,et al. Global Genomic Epidemiology of Salmonella enterica Serovar Typhimurium DT104 , 2016, Applied and Environmental Microbiology.
[26] F. Delsuc. Comparative Genomics , 2010, Lecture Notes in Computer Science.
[27] A. Goesmann,et al. Reassessment of the Listeria monocytogenes pan-genome reveals dynamic integration hotspots and mobile genetic elements as major components of the accessory genome , 2013, BMC Genomics.
[28] Jaideep P. Sundaram,et al. Genome analysis of multiple pathogenic isolates of Streptococcus agalactiae: implications for the microbial "pan-genome". , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[29] W. Gaastra,et al. Escherichia fergusonii. , 2020, Veterinary microbiology.
[30] Ian K Toth,et al. Analysis of the Pantoea ananatis pan-genome reveals factors underlying its ability to colonize and interact with plant, insect and vertebrate hosts , 2014, BMC Genomics.
[31] D. W. Kim,et al. Shigella sonnei genome sequencing and phylogenetic analysis indicate recent global dissemination from Europe , 2012, Nature Genetics.