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Activity Number: 366
Type: Invited
Date/Time: Tuesday, August 5, 2014 : 2:00 PM to 3:50 PM
Sponsor: General Methodology
Abstract #310951
Title: Relating Developmental Transcription Factors (TFs) Based on Fruitfly Embryonic Images
Author(s): Bin Yu*+ and Siqi Wu and Erwin Frise and Antony Joseph and Ann Hammonds and Susan Celniker
Companies: University of California, Berkeley and University of California, Berkeley and Lawrence Berkeley National Laboratory and University of California, Berkeley/LBNL and LBNL and LBNL
Keywords: transcription factor ; fruitfly ; embryo ; sparse coding ; correlation ; validation
Abstract:

A fundamental problem in developmental systems biology is to understand driving forces behind organ formation. In this talk, we use 400+ high-throughput TF images from fruitfly embryoic stage 4-6 to relate these TFs in order to shed light into the TF cascades that trigger organ formation processes. We borrow sparse coding ideas from computational neuroscience/computer vision to decompose the images into principal patterns that capture the locations and shapes of group TFs. We use the principal patterns as masks to compute correlations between TFs over functional regions of the embryo. We validate the correlation network for the well-known gap genes against their known network structure from biological experiments and discuss possibly new members of the gap gene network and new interactions among other genes discovered through our analysis.


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