title: Analysis of large-scale sequencing of small RNAs.
abstract: The advent of large-scale sequencing has opened up new areas of research, such as the study of Piwi-interacting small RNAs (piRNAs). piRNAs are longer than miRNAs, close to 30 nucleotides in length, involved in various functions, such as the suppression of transposons in germline. Since a large number of them (many tens of thousands) are generated from a wide range of positions in the genome, large-scale sequencing is the only way to study them. The key to understanding their genesis and biological roles is efficient analysis, which is complicated by the large volumes of sequence data. Taking account of the underlying biology is also important. We describe here novel analyses techniques and tools applied to small RNAs from germ cells in D. melanogaster, that allowed us to infer mechanism and biological function.
authors.affiliation: Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY 11724, USA.
authors.forename: A J
authors.initials: AJ
authors.lastname: Olson
authors.forename: J
authors.initials: J
authors.lastname: Brennecke
authors.forename: A A
authors.initials: AA
authors.lastname: Aravin
authors.forename: G J
authors.initials: GJ
authors.lastname: Hannon
authors.forename: R
authors.initials: R
authors.lastname: Sachidanandam
mesh_terms: D000818:Animals; D060565:Argonaute Proteins; D019295:Computational Biology; D029721:Drosophila Proteins / Q000235:genetics; D004331:Drosophila melanogaster / Q000235:genetics; D049750:Genome, Insect; D005854:Germ Cells; D005810:Multigene Family; D010448:Peptide Initiation Factors / Q000235:genetics; D012313:RNA / Q000235:genetics*; D034741:RNA, Small Interfering / Q000235:genetics; D017423:Sequence Analysis, RNA / Q000706:statistics & numerical data*
chemical_list: C518392:AGO3 protein, Drosophila; D060565:Argonaute Proteins; D029721:Drosophila Proteins; D010448:Peptide Initiation Factors; D034741:RNA, Small Interfering; C436124:aub protein, Drosophila; D012313:RNA