%0 Journal Article %A Xiaoxi Dong, Postdoctoral scholar %A Anatoly Yambartsev, Assistant professor %A Stephen Ramsey, Assistant professor %A Lina Thomas, Graduate student %A Natalia Shulzhenko, Assistant professor %A Andrey Morgun, Assistant professor %T Reverse enGENEering of regulatory networks from Big Data: a guide for a biologist %D 2014 %R 10.1101/011056 %J bioRxiv %P 011056 %X Omics technologies enable unbiased investigation of biological systems through massively parallel sequence acquisition or molecular measurements, bringing the life sciences into the era of Big Data. A central challenge posed by such omics datasets is how to transform this data into biological knowledge. For example, how to use this data to answer questions such as: which functional pathways are involved in cell differentiation? Which genes should we target to stop cancer? Network analysis is a powerful and general approach to solve this problem consisting of two fundamental stages, network reconstruction and network interrogation. Herein, we provide an overview of network analysis including a step by step guide on how to perform and use this approach to investigate a biological question. In this guide, we also include the software packages that we and others employ for each of the steps of a network analysis workflow. %U https://www.biorxiv.org/content/biorxiv/early/2014/11/03/011056.full.pdf