In graduate school I learned about a new class of small RNAs derived from tRNAs known as tRFs. I was told that working on them would be risky and there weren't other people working on them. After looking through the literature I decided the best approach would be to look at PAR-CLIP and CLASH data to investigate if they had similar properties to miRNAs. I taught myself how to use the university's computing cluster and how to download and analyze sequencing data. My results led to a F31 grant and publication in my first year in graduate school. I consider myself a world leader in small RNA biology and am interested in applying machine learning to small RNA datasets.
Related Publications
Meta-analysis of tRNA derived RNA fragments reveals that they are evolutionarily conserved and associate with AGO proteins to recognize specific RNA targets BMC Biology
tRFdb: a database for transfer RNA fragments Nucleic Acids Research
Related Posts
How to download small RNA-Seq data and find adaptors de novo Posted August 6th, 2015 in Tools
PAR-CLIP: explanation of method and uses Posted February 17th, 2016 in Tools
CDF plots and mislabeled samples Posted March 21st, 2016 in Tools In this post I provide code for making CDF plots with Python and explain how this can be used to check if RNAi microarray samples have been mislabeled.