id	author	title	date	pages	extension	mime	words	sentences	flesch	summary	cache	txt
cord-333473-c1lykari	Irigoyen, Nerea	High-Resolution Analysis of Coronavirus Gene Expression by RNA Sequencing and Ribosome Profiling	2016-02-26		.txt	text/plain	18258	844	56	Also, it has been employed in the study of the replication of large DNA viruses; namely, human cytomegalovirus [17] [18] , Kaposi's sarcoma-associated herpesvirus [19] , herpes simplex virus 1 [20] , vaccinia virus [21] , and bacteriophage lambda [22] , providing insights into the temporal regulation of gene expression in these viruses and identifying numerous previously unrecognized translated ORFs, including novel protein-coding ORFs and short regulatory uORFs. In this paper, we describe the first analysis of RNA virus replication and gene expression by ribosome profiling (and parallel RNASeq), using MHV as a model system. The latter are calculated on a per gene (rather than per transcript) basis, using RNASeq and RiboSeq reads contained entirely within annotated CDS regions (i.e. excluding 5 0 and 3 0 UTRs and also RPFs accumulating at or near to initiation or termination sites), and, like the virus values, are expressed relative to the mean levels for the cell (due to normalization by library size).	./cache/cord-333473-c1lykari.txt	./txt/cord-333473-c1lykari.txt