Andrew Uzilov Member of the Lowe Lab Graduate Student since September 2007 Bioinformatics PhD Program University of California, Santa Cruz

Background

I graduated from the University of Rochester (B.S. in Biochemistry, B.A. in Computer Science, both 2005), where I worked for Dave Mathews as an undergraduate. Then I spent two years bumming around Ian Holmes' lab at UC Berkeley. At UCSC, I rotated through the labs of David Haussler, Josh Stuart, and Todd Lowe. I am now a full-time member of the Lowe lab and I highly recommend it.

More Info

Some pictures.

Research Interests

• High-throughput sequencing of transcriptomes.
• Non-coding/functional RNA discovery and genomic annotation.
• Computational RNA structure prediction.
• RNA engineering.

Papers

1. Bradley RK, Uzilov AV, Skinner ME, Bendaña YR, Barquist L, Holmes I. Evolutionary modeling and prediction of non-coding RNAs in Drosophila. PLoS One (2009) 4(8):e6478.
2. Skinner ME, Uzilov AV, Stein LD, Mungall CJ, Holmes IH. JBrowse: a next-generation genome browser. Genome Research (2009) 19:1630-1638.
   • Mentioned in Research Highlights in Nature Biotechnology (2009) 27:734.
   • See the live demo.
3. Klosterman PS, Uzilov AV, Bendana YR, Bradley RK, Chao S, Kosiol C, Goldman N, Holmes I. XRate: a fast prototyping, training and annotation tool for phylo-grammars. BMC Bioinformatics (2006) 7:428.
4. Uzilov AV, Keegan JM, Mathews DH. Detection of non-coding RNAs on the basis of predicted secondary structure formation free energy change. BMC Bioinformatics (2006) 7:173.

Affiliations?

Let's play the Affiliations Game! I am...

• ...pursuing a PhD in the Bioinformatics program (BINF)
• ...which is offered through the Department of Biomolecular Engineering (BME)
• ...which is part of the Baskin School of Engineering (SOE or BSOE), formerly known as Computer Science and Engineering (CSE)
• ...which is a school of the University of California, Santa Cruz (UCSC)
• ...which is part of the University of California state university system (UC)

Somehow, though I'm not quite sure how, I may or may not be affiliated with the Center for Biomolecular Science & Engineering (CBSE).

I am also a National Science Foundation Graduate Research Fellowship Program (NSF GRFP) fellow beginning September 2009. Here is the BSOE news article.