Seminar in applied mathematics and statistics
SPEAKER: Kasper Daniel Hansen (Johns Hopkins University).
TITLE: Removing unwanted variation between samples in Hi-C experiments.
ABSTRACT: The 3D structure of DNA is of intense interest in biology. This structure can be assayed using a technique called Hi-C. For technical reasons, this assay is usually performed in cell lines or in other words in single samples. For this reason, we currently have little understanding of the variation between individuals, and how much of this variation is shaped by genetic differences. Here, we show that contact maps obtained from assays on different individuals are subject to unwanted variation. We present a method to reduce the impact of this unwanted variation. As part of the background we will discuss the concept of unwanted variation or batch effects in genomics.
Tea and chocolate will be served in room 04.4.19 after the seminar.