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A mammalian microRNA expression atlas based on small RNA library sequencing.

TitleA mammalian microRNA expression atlas based on small RNA library sequencing.
Publication TypeJournal Article
Year of Publication2007
AuthorsLandgraf P, Rusu M, Sheridan R, Sewer A, Iovino N, Aravin A, Pfeffer S, Rice A, Kamphorst AO, Landthaler M, Lin C, Socci ND, Hermida L, Fulci V, Chiaretti S, Foà R, Schliwka J, Fuchs U, Novosel A, Müller R-U, Schermer B, Bissels U, Inman J, Phan Q, Chien M, Weir DB, Choksi R, De Vita G, Frezzetti D, Trompeter H-I, Hornung V, Teng G, Hartmann G, Palkovits M, Di Lauro R, Wernet P, Macino G, Rogler CE, Nagle JW, Ju J, F Papavasiliou N, Benzing T, Lichter P, Tam W, Brownstein MJ, Bosio A, Borkhardt A, Russo JJ, Sander C, Zavolan M, Tuschl T
JournalCell
Volume129
Issue7
Pagination1401-14
Date Published2007 Jun 29
ISSN0092-8674
KeywordsAnimals, Base Sequence, Cell Lineage, Conserved Sequence, Gene Expression Profiling, Gene Expression Regulation, Gene Library, Hematologic Neoplasms, Hematopoietic Stem Cells, Humans, Mice, MicroRNAs, Molecular Sequence Data, Phylogeny, Rats, RNA, Messenger, Sequence Homology, Nucleic Acid
Abstract

MicroRNAs (miRNAs) are small noncoding regulatory RNAs that reduce stability and/or translation of fully or partially sequence-complementary target mRNAs. In order to identify miRNAs and to assess their expression patterns, we sequenced over 250 small RNA libraries from 26 different organ systems and cell types of human and rodents that were enriched in neuronal as well as normal and malignant hematopoietic cells and tissues. We present expression profiles derived from clone count data and provide computational tools for their analysis. Unexpectedly, a relatively small set of miRNAs, many of which are ubiquitously expressed, account for most of the differences in miRNA profiles between cell lineages and tissues. This broad survey also provides detailed and accurate information about mature sequences, precursors, genome locations, maturation processes, inferred transcriptional units, and conservation patterns. We also propose a subclassification scheme for miRNAs for assisting future experimental and computational functional analyses.

DOI10.1016/j.cell.2007.04.040
Alternate JournalCell
PubMed ID17604727
PubMed Central IDPMC2681231
Grant ListP01 GM073047 / GM / NIGMS NIH HHS / United States
P01 GM073047-01 / GM / NIGMS NIH HHS / United States
P01 GM073047-03 / GM / NIGMS NIH HHS / United States