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


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.

SUBMITTER: Landgraf P 

PROVIDER: S-EPMC2681231 | biostudies-literature | 2007 Jun

REPOSITORIES: biostudies-literature

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

Landgraf Pablo P   Rusu Mirabela M   Sheridan Robert R   Sewer Alain A   Iovino Nicola N   Aravin Alexei A   Pfeffer Sébastien S   Rice Amanda A   Kamphorst Alice O AO   Landthaler Markus M   Lin Carolina C   Socci Nicholas D ND   Hermida Leandro L   Fulci Valerio V   Chiaretti Sabina S   Foà Robin R   Schliwka Julia J   Fuchs Uta U   Novosel Astrid A   Müller Roman-Ulrich RU   Schermer Bernhard B   Bissels Ute U   Inman Jason J   Phan Quang Q   Chien Minchen M   Weir David B DB   Choksi Ruchi R   De Vita Gabriella G   Frezzetti Daniela D   Trompeter Hans-Ingo HI   Hornung Veit V   Teng Grace G   Hartmann Gunther G   Palkovits Miklos M   Di Lauro Roberto R   Wernet Peter P   Macino Giuseppe G   Rogler Charles E CE   Nagle James W JW   Ju Jingyue J   Papavasiliou F Nina FN   Benzing Thomas T   Lichter Peter P   Tam Wayne W   Brownstein Michael J MJ   Bosio Andreas A   Borkhardt Arndt A   Russo James J JJ   Sander Chris C   Zavolan Mihaela M   Tuschl Thomas T  

Cell 20070601 7


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 provi  ...[more]

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