Ashish Agarwal

Genomics, like many fields, is generating data at an ever increasing rate with the promise to enable personalized medicine, improve agriculture, and advance fundamental research. Data visualization is a key component of the scientific process and often the bottleneck in effective interpretation of analysis results. Well begin with a broad introduct... ion to Genomics and then describe several visualization challenges. We categorize the challenges in three domains: those arising purely from the size of the data, those requiring intricate interactivity, and those requiring high resolution 3D rendering. The goal of the talk is to provide a broad overview of visualization challenges in the field of Genomics. Paul Scheid, Ashish Agarwal, Karl Ward. Challenges in Genomics Data Visualization , Tisch Interactive Telecommunications Program (ITP), New York University, Apr 12, 2013. Th17 cells have critical roles in mucosal defense and are major contributors to inflammatory disease. Their differentiation requires the nuclear hormone receptor RORt working with multiple other essential transcription factors (TFs). We have used an iterative systems approach, combining genome-wide TF occupancy, expression profiling of TF mutants, and expression time series to delineate the Th17 global transcriptional regulatory network. We find that cooperatively bound BATF and IRF4 contribute to initial chromatin accessibility and, with STAT3, initiate a transcriptional program that is then globally tuned by the lineage-specifying TF RORt, which plays a focal deterministic role at key loci. Integration of multiple data sets allowed inference of an accurate predictive model that we computationally and experimentally validated, identifying multiple new Th17 regulators, including Fosl2, a key determinant of cellular plasticity. This interconnected network can be used to investigate new therapeutic approaches to manipulate Th17 functions in the setting of inflammatory disease. Im on my way to ICFP , CUFP , OUD , and more in Copenhagen. Especially ...Read More