Recommended Readings: David Tollervey, Ph.D., April 10

Friday Lecture Series
Friday, April 10, 2015
3:45 p.m., Caspary Auditorium

David Tollervey, Ph.D.,
Director,
Wellcome Trust Centre for Cell Biology,
University of Edinburgh

Lighting Up RNA Interactions

Recommended Readings

Empirical Articles

Granneman, S., Kudla, G., Petfalski, E., & Tollervey, D. (2009). Identification of protein binding sites on U3 snoRNA and pre-rRNA by UV cross-linking and high-throughput analysis of cDNAs. Proceedings of the National Academy of Sciences, 106(24), 9613-9618. doi:10.1073/pnas.0901997106

Helwak, A., Kudla, G., Dudnakova, T., & Tollervey, D. (2013). Mapping the human miRNA interactome by CLASH reveals frequent noncanonical binding. Cell, 153(3), 654-665. doi:10.1016/j.cell.2013.03.043

Helwak, A., & Tollervey, D. (2014). Mapping the miRNA interactome by cross-linking ligation and sequencing of hybrids (CLASH). Nature Protocols, 9(3), 711-728. doi:10.1038/nprot.2014.043

Tuck, A. C., & Tollervey, D. (2013). A transcriptome-wide atlas of RNP composition reveals diverse classes of mRNAs and lncRNAs. Cell, 154(5), 996-1009. doi:10.1016/j.cell.2013.07.047

Review Papers

Schneider, C., & Tollervey, D. (2013). Threading the barrel of the RNA exosome. Trends in Biochemical Sciences, 38(10), 485-493. doi:10.1016/j.tibs.2013.06.013

Tuck, A. C., & Tollervey, D. (2011). RNA in pieces. Trends in Genetics, 27(10), 422-432. doi:10.1016/j.tig.2011.06.001

New Method Improves Accuracy of Whole Genome Sequencing

July 11, 2012  NATURE has published a research article detailing a new methodology to  dramatically improve the accuracy of whole genome sequencing.  The work was done by a company called Complete Genomics.   The NATURE paper describes the Company’s “Long Fragment Read” technology (LFR) that not only improves the accuracy, but also reduces the amount of DNA needed, for analysis.  This technology is expected to accelerate the clinical adoption of whole genome sequencing.

DNA Of Uncultured Organisms Sequenced Using Novel Single-cell Approach

ScienceDaily (Apr. 28, 2009) — Scientists from the U.S. Department of Energy (DOE) Joint Genome Institute (JGI) and the Bigelow Laboratory for Ocean Sciences have assembled high quality, contamination-free draft genomes of uncultured biodegrading microorganisms using a novel single cell genome sequencing approach.  This proof of principle study, published in the April 23 edition of the journal PLoS One, offers researchers a new method to access and decipher the information embedded in genomes of interest with only minute quantities of DNA.