2014 WRF and Moore/Sloan Postdoctoral Fellow
Biological Sciences, Health Sciences
Department of Genome Sciences
Bill Noble, Genome Sciences
Jeff Bilmes, Electrical Engineering
Ph.D., Computer Science, University of Wisconsin-Madison, 2014 M.S., Statistics, University of Wisconsin-Madison, 2011
M.S., Computer Science, University of Wisconsin-Madison, 2009 M.S., Signal and Information Processing, Peking University, 2007
B.S., Info. Management & Info. Systems, Beijing Univ. of Posts and Telecom, 2004
In aggressive and metastatic breast cancer, genomic aberrations quickly evolve and metastasize, resulting in extreme spatial and temporal heterogeneity, which makes the cancer extremely difficult to treat. As a result, multiple biopsies over different locations and at different time points need to be collected and sequenced to monitor the oncogenic processes within individual patients.
In Jie Liu’s research project, he and his team aim to jointly analyze these different types of genomic aberration events from multi-location/multi-time biopsies in metastatic breast cancer using an integrated probabilistic model. This approach will allow him to accurately characterize genomic aberrations and understand oncogenic processes at a significantly larger scale, which are critical barriers to progress in cancer genome research.
In addition, the proposed project solves many data science challenges in this data-rich, computation-intensive “Big Data” problem, such as handling noisy data, scaling and speeding up, inference under uncertainty, and incremental analysis. The proposed approach will greatly facilitate the transformation of terabytes of DNA sequences.