NIH - Oxford
National Institutes of Health Investigator:
Primary Research Area:
Biochemistry, Molecular and Structural Biology
Secondary Research Area:
Immunology and Infectious Disease
Proteomic identification of lncRNA-binding proteins and other ribonucleoprotein complexes
We are interested in regulatory networks that govern how immune cells differentiate and function. Recently, the Muljo lab has begun to identify interesting long non-coding RNAs (lncRNA) by RNA-seq. Most of these novel lncRNAs are of unknown function. As one strategy in determining their function, we are interested in identifying proteins that bind to these lncRNAs. In collaboration with the Acuto lab, we propose to use lncRNAs as baits for proteomic analysis using multi-dimensional protein identification technology (MudPIT). Conversely, the mammalian genome encodes for nearly 1000 RNA-binding proteins. Similarly, the function of most of these proteins are unknown. It is becoming increasingly clear that multiple molecular machines within our cells consist of multi-component protein-RNA complexes, such as the ribosome, telomerase, spliceosome, RNA-induced silencing complex (RISC),... Thus, it would be interesting to identify the proteins and RNAs that specifically bind to RNA-binding proteins. Again, we can use proteomics to characterize such protein complexes and we can use RNA-seq to identify the RNAs that exist as part of these ribonucleoprotein complexes.