Molecular, Cell and Systems Biology

Fedor V. Karginov

Office: (951) 827-3604
Fax: (951) 827-5155
3119C Genomics Building
Office Hours: , 2pm - 2pm
Email: fedor.karginov@ucr.edu

Ted Karginov

Assistant Professor of Cell Biology & Neuroscience
Ph.D. 2005, University of Colorado
B.S. 1998, University of Virginia


Gene expression is elaborately controlled at the post-transcriptional level.  Molecularly, this control is accomplished through interactions of small RNAs (microRNAs) and RNA-binding proteins (RBPs) with specific sites on messenger RNAs; these associations affect the stability and translation rates of the mRNAs, altering the protein output.  As the cell or its environment changes (for example, in cases of differentiation or stress), the interactions between these factors and mRNAs dynamically rearrange to adjust the expression program.  Furthermore, binding of microRNAs or RBPs at nearby sites on the same mRNA allows for additive or synergistic interactions between the regulators themselves, imparting a higher order of combinatorial control.  In this way, hundreds of microRNAs and RBPs functioning in mammalian cells set up a post-transcriptional regulatory network.

Our research focuses on understanding the overall mapping and principles of the interactions between mRNAs and their controlling factors - microRNAs and RBPs, and the interplay between these factors.  To this end, we employ a mixture of tools in molecular biology, bioinformatics and cell biology. These tools include high-throughput, transcriptome-wide techniques to assess the interaction patterns (CLIP-seq and RNA-seq), as well as targeted studies of individual mRNAs using reporter systems.


  • Karginov FV, Hannon GJ. Remodeling of Ago2-mRNA interactions upon cellular stress reflects miRNA complementarity and correlates with altered translation rates. Genes & development 2013, 27:1624-1632.
  • Uren PJ, Bahrami-Samani E, Burns SC, Qiao M, Karginov FV, Hodges E, Hannon GJ, Sanford JR, Penalva LO, Smith AD. Site identification in high-throughput RNA-protein interaction data.Bioinformatics 2012, 28:3013-3020.
  • Roca X, Karginov FV. RNA biology in a test tube--an overview of in vitro systems/assays.Wiley interdisciplinary reviews. RNA 2012, 3:509-527.
  • Karginov FV, Cheloufi S, Chong MM, Stark A, Smith AD, Hannon GJ. Diverse endonucleolytic cleavage sites in the mammalian transcriptome depend upon microRNAs, Drosha, and additional nucleases.Molecular cell 2010, 38:781-788.
  • Karginov FV, Hannon GJ. The CRISPR system: small RNA-guided defense in bacteria and archaea.Molecular cell 2010, 37:7-19.
  • Rechavi O, Erlich Y, Amram H, Flomenblit L, Karginov FV, Goldstein I, Hannon GJ, Kloog Y. Cell contact-dependent acquisition of cellular and viral nonautonomously encoded small RNAs.Genes & development 2009, 23:1971-1979.
  • Uziel T, Karginov FV, Xie S, Parker JS, Wang YD, Gajjar A, He L, Ellison D, Gilbertson RJ, Hannon G, et al. The miR-17~92 cluster collaborates with the Sonic Hedgehog pathway in medulloblastoma.Proceedings of the National Academy of Sciences of the United States of America2009, 106:2812-2817.
  • Haiser HJ, Karginov FV, Hannon GJ, Elliot MA. Developmentally regulated cleavage of tRNAs in the bacterium Streptomyces coelicolor.Nucleic acids research 2008, 36:732-741.
  • Karginov FV, Conaco C, Xuan Z, Schmidt BH, Parker JS, Mandel G, Hannon GJ. A biochemical approach to identifying microRNA targets.Proceedings of the National Academy of Sciences of the United States of America 2007, 104:19291-19296.

More Information

General Campus Information

University of California, Riverside
900 University Ave.
Riverside, CA 92521
Tel: (951) 827-1012

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Department Information

Molecular, Cell and Systems Biology
2111 Biological Sciences Bldg.

Manuela Martins-Green: Chair of Molecular, Cell and Systems Biology
Tel: (951) 827-2831
Fax: (951) 827-3087
E-mail: manuela.martins@ucr.edu