title: Stranded Whole Transcriptome RNA-Seq for All RNA Types.
abstract: Stranded whole transcriptome RNA-Seq described in this unit captures quantitative expression data for all types of RNA including, but not limited to, miRNA (microRNA), piRNA (Piwi-interacting RNA), snoRNA (small nucleolar RNA), lincRNA (large non-coding intergenic RNA), SRP RNA (signal recognition particle RNA), tRNA (transfer RNA), mtRNA (mitochondrial RNA), and mRNA (messenger RNA). The size and nature of these types of RNA are irrelevant to the approach described here. Barcoded libraries for multiplexing on the Illumina platform are generated with this approach but it can be applied to other platforms with a few modifications.
authors.affiliation: Medical Sciences, Indiana University School of Medicine, Bloomington, Indiana.
authors.forename: David F B
authors.initials: DFB
authors.lastname: Miller
authors.affiliation: Department of Internal Medicine, OSUCCC-Illumina Core, Columbus, Ohio.
authors.forename: Pearlly X
authors.initials: PX
authors.lastname: Yan
authors.affiliation: Medical Sciences, Indiana University School of Medicine, Bloomington, Indiana.
authors.forename: Fang
authors.initials: F
authors.lastname: Fang
authors.affiliation: Indiana University Center for Genomics and Bioinformatics, Bloomington, Indiana.
authors.forename: Aaron
authors.initials: A
authors.lastname: Buechlein
authors.affiliation: Indiana University Center for Genomics and Bioinformatics, Bloomington, Indiana.
authors.forename: James B
authors.initials: JB
authors.lastname: Ford
authors.affiliation: Indiana University Center for Genomics and Bioinformatics, Bloomington, Indiana.
authors.forename: Haixu
authors.initials: H
authors.lastname: Tang
authors.affiliation: Department of Molecular Medicine, University of Texan Health Science Center, San Antonio, Texas.
authors.forename: Tim H
authors.initials: TH
authors.lastname: Huang
authors.affiliation: Department of Medicine, Tulane University, New Orleans, Louisiana.
authors.forename: Matthew E
authors.initials: ME
authors.lastname: Burow
authors.affiliation: Indiana University School of Medicine, Center for Computation Biology and Bioinformatics, Indianapolis, Indiana.
authors.forename: Yunlong
authors.initials: Y
authors.lastname: Liu
authors.affiliation: Indiana University Center for Genomics and Bioinformatics, Bloomington, Indiana.
authors.forename: Douglas B
authors.initials: DB
authors.lastname: Rusch
authors.affiliation: Medical Sciences, Indiana University School of Medicine, Bloomington, Indiana.
authors.forename: Kenneth P
authors.initials: KP
authors.lastname: Nephew
mesh_terms: D018076:DNA, Complementary / Q000032:analysis / Q000235:genetics; D015723:Gene Library; D059014:High-Throughput Nucleotide Sequencing / Q000295:instrumentation / Q000379:methods*; D006801:Humans; D016133:Polymerase Chain Reaction / Q000379:methods; D012313:RNA / Q000032:analysis* / Q000235:genetics; D062085:RNA, Long Noncoding / Q000032:analysis* / Q000235:genetics; D012333:RNA, Messenger / Q000032:analysis* / Q000235:genetics; D000077278:RNA, Mitochondrial; D058727:RNA, Small Untranslated / Q000032:analysis* / Q000145:classification / Q000235:genetics; D012343:RNA, Transfer / Q000032:analysis* / Q000235:genetics; D048348:Reverse Transcription; D059467:Transcriptome
chemical_list: D018076:DNA, Complementary; D062085:RNA, Long Noncoding; D012333:RNA, Messenger; D000077278:RNA, Mitochondrial; D058727:RNA, Small Untranslated; D012313:RNA; D012343:RNA, Transfer
keywords: RNA-Seq; duplex-specific nuclease; gene expression; transcriptome