comparative microbial modules resource generation and visualization of multi-species biclusters比较微生物资源生成和可视化模块biclusters大型化.pdfVIP

Comparative Microbial Modules Resource: Generation and Visualization of Multi-species Biclusters 1. 2,3. 1 1 1,2,3 Thadeous Kacmarczyk , Peter Waltman , Ashley Bate , Patrick Eichenberger , Richard Bonneau * 1 Center for Genomics and Systems Biology, Department of Biology, New York University, New York, New York, United States of America, 2 Computer Science Department, Courant Institute for Mathematical Sciences, New York University, New York, New York, United States of America, 3 Computational Biology Program, New York University, New York, New York, United States of America Abstract The increasing abundance of large-scale, high-throughput datasets for many closely related organisms provides opportunities for comparative analysis via the simultaneous biclustering of datasets from multiple species. These analyses require a reformulation of how to organize multi-species datasets and visualize comparative genomics data analyses results. Recently, we developed a method, multi-species cMonkey, which integrates heterogeneous high-throughput datatypes from multiple species to identify conserved regulatory modules. Here we present an integrated data visualization system, built upon the Gaggle, enabling exploration of our method’s results (available at /cmmr.html). The system can also be used to explore other comparative genomics datasets and outputs from other data analysis procedures – results from other multiple-species clustering programs or from independent clustering of different single- species datasets. We provide an example use of our system for two bacteria, Escherichia coli and Salmonella Typhimurium.