Encyclopedia of C. elegans 3' UTRs and their regulatory elements
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Fabio Piano (PI) Kristin Gunsalus John Kim Nikolaus Rajewsky |
New York University New York University University of Michigan New York University |
The 3' untranslated region (3' UTR) constitutes a major site of post-transcriptional regulation of gene expression. Sequence elements in the 3' UTR interact with trans-acting regulators such as microRNAs that affect translation and stability. Deciphering the global interactions among these sequence elements will open a new window into gene regulatory networks. However, mapping these interactions in vivo will require detailed cell- or tissue-type specific data as well as new methods for in vivo validation studies. To obtain molecular resolution of these sequence elements in a living organism at a genomic scale, we need to develop and implement new methods and explore their use for large-scale analyses. We are thus proposing to conduct a pilot project toward building a comprehensive dynamic view of the "3' UTRome" in the context of animal development in the model organism C. elegans. Our overall aims are to: 1. Pilot a 3'RACE-cloning-sequencing strategy to identify the 3' UTRs of ~6,000 transcripts and explore their heterogeneity. 2. Pilot new technology to map temporal and tissue-specific profiles of small RNAs and mRNAs in C. elegans. 3. Pilot an in vivo system to test elements that mediate post-transcriptional regulation of gene expression.
Information Resources to be Generated
Sequence elements: 3' UTRs tissue and cell specific microRNAs and other smallRNAs predicted microRNA binding sites
Reagents to be Generated
3'UTR clones
Contact Information
- PI: Fabio Piano, fp1@nyu.edu
- co-PI: John Kim, jnkim@umich.edu
- co-PI: Nikolaus Rajewsky, rajewsky@mdc-berlin.de
- co-PI: Kris Gunsalus, kcg1@nyu.edu
- Informatics: Marco Mangone, mangone@nyu.edu