Genome-Wide Analysis in Vivo of Translation with Nucleotide Resolution Using Ribosome Profiling

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We thank C. Chu, J. deRisi, and K. Fischer for help with sequencing; D. Bartel, H. Guo, D. Herschlag, J. Hollien, S. Luo, and G. Schroth for helpful discussions of RNA methods; P. Walter and T. Aragon for the use of a density gradient fractionator; the 2008 Woods Hole Physiology course students for data analysis; and members of the Weissman lab, L. Lareau, and T. Ingolia for critical commentary on the manuscript. Sequencing data have been deposited in the National Center for Biotechnology Information's Gene Expression Omnibus (www.ncbi.nlm.nih.gov/geo/) under accession number GSE13750. This investigation was supported by a NIH P01 grant (AG10770) and a Ruth L. Kirschstein National Research Service Award (GM080853) (to N.T.I.) and by the Howard Hughes Medical Institute (to J.S.W.). N.T.I. and J.S.W. are the inventors on a patent application, assigned to the Regents of the University of California, on the ribosome profiling and sequencing library generation techniques described in this work. S.G. and J.R.S.N. developed a microarray-based approach that served as a proof of principle for the present studies; N.T.I. and J.S.W. designed the experiments; N.T.I. performed the experiments and analyzed the data; and N.T.I. and J.S.W. interpreted the results and wrote the manuscript.