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Series GSE7233 Query DataSets for GSE7233
Status Public on Jun 17, 2007
Title A Mammalian microRNA Expression Atlas Based on Small RNA Library Sequencing
Platform organisms Homo sapiens; Mus musculus; Rattus norvegicus
Sample organisms Homo sapiens; synthetic construct
Experiment type Non-coding RNA profiling by array
Summary MicroRNAs (miRNAs) are small non-coding 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, enriched in euronal as well as normal and malignant hematopoietic cells and tissues. We present expression profiles derived from clone count data and provide novel computational tools for their analysis. Unexpectedly, a relatively small set of miRNAs, many of which are ubiquitously expressed, account for most of the difference 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.
Keywords: miRNA microarray; expression profiling
Overall design To validate the results of the miRNA profiling achieved by sequence analysis of small RNA clone libraries we performed additional dual color microarray hybridizations using a synthetic miRNA pool as a common reference. 5 μg total RNA of the samples hsa_Hepatoma-PLC (array
# 517063), hsa_Hepatocell-carcinoma-Huh7-mock (array #517064), hsa_Gliobl-SNB19 (array #517065), hsa_Hippocamp-adult (array #517066), and hsa_T-cell-CD4-A301 (array #517067), were hybridized on miRNA arrays carrying probes for all miRNA described in the present study. Sample hsa_T-cell-CD4-A301 was also analysed using 10 μg of total RNA to check for reproducibility and potential bias due to varying amounts of input RNA (array #517068).
Contributor(s) Landgraf P, Sewer A, Bissels U, Bosio A, Zavolan M, Tuschl T
Citation(s) 17604727
Submission date Mar 09, 2007
Last update date Mar 16, 2012
Contact name Frank Huebel
Fax +49 221 950 48 48
Organization name Miltenyi Biotec GmbH, MACS Molecular Business Unit
Department MACS Molecular 9
Street address Stoeckheimer Weg 1
State/province NRW
ZIP/Postal code 50829
Country Germany
Platforms (1)
GPL4867 Miltenyi Biotec miRNA microarray (716)
Samples (6)
GSM173154 hsa_Hepatoma_PLC vs. synthetic miRNA pool
GSM173155 hsa_hepatocell-carcinoma-Huh7-mock vs. synthetic miRNA pool
GSM173156 hsa_Gliobl-SNb19 vs. synthetic miRNA pool
BioProject PRJNA97913

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE7233_RAW.tar 470.0 Kb (http)(custom) TAR (of TXT)

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