@article{bd43d3bb584b41cab619343e52c71b5d,
title = "Comprehensive discovery of noncoding RNAs in acute myeloid leukemia cell transcriptomes",
abstract = "To detect diverse and novel RNA species comprehensively, we compared deep small RNA and RNA sequencing (RNA-seq) methods applied to a primary acute myeloid leukemia (AML) sample. We were able to discover previously unannotated small RNAs using deep sequencing of a library method using broader insert size selection. We analyzed the long noncoding RNA (lncRNA) landscape in AML by comparing deep sequencing from multiple RNA-seq library construction methods for the sample that we studied and then integrating RNA-seq data from 179 AML cases. This identified lncRNAs that are completely novel, differentially expressed, and associated with specific AML subtypes. Our study revealed the complexity of the noncoding RNA transcriptome through a combined strategy of strand-specific small RNA and total RNA-seq. This dataset will serve as an invaluable resource for future RNA-based analyses.",
author = "Jin Zhang and Malachi Griffith and Miller, {Christopher A.} and Griffith, {Obi L.} and Spencer, {David H.} and Walker, {Jason R.} and Vincent Magrini and McGrath, {Sean D.} and Amy Ly and Helton, {Nichole M.} and Maria Trissal and Link, {Daniel C.} and Dang, {Ha X.} and Larson, {David E.} and Shashikant Kulkarni and Cordes, {Matthew G.} and Fronick, {Catrina C.} and Fulton, {Robert S.} and Klco, {Jeffery M.} and Mardis, {Elaine R.} and Ley, {Timothy J.} and Wilson, {Richard K.} and Maher, {Christopher A.}",
note = "Funding Information: The authors thank the McDonnell Genome Institute's LIMS, Analysis Pipeline, and Systems groups for developing and maintaining the automated sequence analysis pipelines. This work was supported by grants from the National Cancer Institute ( PO1CA101937 to T.J.L.) and the National Human Genome Research Institute ( U54HG003079 to R.K.W.). The accession number for the sequence data reported in this paper is dbGaP: phs000159. Publisher Copyright: {\textcopyright} 2017 ISEH – Society for Hematology and Stem Cells",
year = "2017",
month = nov,
doi = "10.1016/j.exphem.2017.07.008",
language = "English",
volume = "55",
pages = "19--33",
journal = "Experimental Hematology",
issn = "0301-472X",
}