title: Bioinformatic analysis of barcoded cDNA libraries for small RNA profiling by next-generation sequencing.
abstract: The characterization of post-transcriptional gene regulation by small regulatory RNAs of 20-30 nt length, particularly miRNAs and piRNAs, has become a major focus of research in recent years. A prerequisite for the characterization of small RNAs is their identification and quantification across different developmental stages, normal and diseased tissues, as well as model cell lines. Here we present a step-by-step protocol for the bioinformatic analysis of barcoded cDNA libraries for small RNA profiling generated by Illumina sequencing, thereby facilitating miRNA and other small RNA profiling of large sample collections.
authors: Howard Hughes Medical Institute, Laboratory of RNA Molecular Biology, The Rockefeller University, 1230 York Avenue, Box 186, New York, NY 10065, USA.
authors: Thalia A
authors: TA
authors: Farazi
authors: Miguel
authors: M
authors: Brown
authors: Pavel
authors: P
authors: Morozov
authors: Jelle J
authors: JJ
authors: Ten Hoeve
authors: Iddo Z
authors: IZ
authors: Ben-Dov
authors: Volker
authors: V
authors: Hovestadt
authors: Markus
authors: M
authors: Hafner
authors: Neil
authors: N
authors: Renwick
authors: Aleksandra
authors: A
authors: Mihailović
authors: Lodewyk F A
authors: LF
authors: Wessels
authors: Thomas
authors: T
authors: Tuschl
mesh_terms: D001483:Base Sequence; D020869:Gene Expression Profiling / Q000379:methods; D015723:Gene Library; D059014:High-Throughput Nucleotide Sequencing / Q000379:methods*; D006801:Humans; D035683:MicroRNAs / Q000737:chemistry / Q000235:genetics; D034741:RNA, Small Interfering / Q000737:chemistry / Q000235:genetics; D017423:Sequence Analysis, RNA / Q000379:methods; D013048:Specimen Handling
chemical_list: D035683:MicroRNAs; D034741:RNA, Small Interfering