Summer 2019

Wed, June 5th 2019, 2:00PM, Venue: HH D210
Xiaohan Kang, UIUC

Title: Time series experimental design under one-shot sampling: The importance of condition diversity

Abstract:Many biological data sets are prepared using one-shot sampling, in which each individual organism is sampled at most once. Time series therefore do not follow trajectories of individuals over time. However, samples collected at different times from individuals grown under the same conditions share the same perturbations of the biological processes, and hence behave as surrogates for multiple samples from a single individual at different times. This implies the importance of growing individuals under multiple conditions if one-shot sampling is used. In this talk, we model the condition effect explicitly by using condition-dependent nominal mRNA production amounts for each gene. We also quantify the performance of network structure estimators both analytically and numerically, and illustrate the difficulty in network reconstruction under one-shot sampling when the condition effect is absent.

Bio: Xiaohan Kang is a postdoctoral research associate in the Coordinated Science Laboratory at the University of Illinois at Urbana–Champaign working with Prof. Bruce Hajek. He received his B.E. from Tsinghua University and his Ph.D. from Arizona State University, both in Electrical Engineering. His research interests include bioinformatics, resource allocation in data networks, algorithm design and analysis, and game theory. He received the 2015 IEEE INFOCOM Best Paper Award.