Seminar: Prof. Ken W.Y. Cho

Uncovering early endoderm gene regulatory program using genome-wide approaches

Date:
11 May 2015 15:00 hrs. - 16:00 hrs.
Location:
Figdor Lecture Theatre, 8th floor RIMLS Building, Geert Grooteplein 26-28, route 289
Title:
Uncovering early endoderm gene regulatory program using genome-wide approaches
Speaker(s):

Prof. Ken W.Y. Cho, Developmental and Cell Biology, University of California, Irvine, USA

Host(s):

Prof. Gert-Jan Veenstra, Dept. of Molecular Developmental Biology, Radboudumc

11-05-2015 15:00:0011-05-2015 16:00:00Europe/AmsterdamUncovering early endoderm gene regulatory program using genome-wide approaches Figdor Lecture Theatre, 8th floor RIMLS Building, Geert Grooteplein 26-28, route 289Rimlsrimls@radboudumc.nl

Remarks / more information:

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The development of animals is regulated by the output of the complex transcriptional signaling programs hardwired in the genome. This regulatory logic, encoding the combinatorial interactions of transcription factors and the integration of cell signals, produces dynamic regulatory states controlling subsequent developmental events. Here, I describe two projects that are currently conducted in my laboratory to decode the gene regulatory network controlling endoderm development. First is about the role of Foxh1, which is a key transcription factor mediating Nodal signaling. I report on the dynamic contribution of Foxh1 to the mesendodermal gene regulatory network and extend beyond its previously characterized role as a Smad2/4 co-factor. Second, I will describe our attempt to understand the large genomic datasets, especially, ChIP-seq. Based on the peak locations identified by ChIP-seq data, we have segmented the Xenopus tropicalis genome into millions of fragments, which were then subjected to the Self Organization Map (SOM) analysis, which is a well-established unsupervised machine-learning method. We apply the SOM to infer interactions between transcription factors and to identify cis-regulatory regions/modules controlling endoderm regulatory networks. 

Key publications:

  • BMP signaling regulates both cell proliferation and ICM lineage commitment in preimplantation-stage mouse embryos. Dev Biol. 397, 45-55, 2015
  • Genome-wide view of TGFβ/Foxh1 regulation of the early mesendoderm program. Development; 141:4537-47, 2014.


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