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Series GSE14511 Query DataSets for GSE14511
Status Public on Sep 08, 2009
Title Quantification of synthetic miRNAs
Platform organisms Homo sapiens; Mus musculus; Rattus norvegicus; Human alphaherpesvirus 1; Human betaherpesvirus 5; Murid betaherpesvirus 1; human gammaherpesvirus 4; JC polyomavirus; Human immunodeficiency virus 1; Murid gammaherpesvirus 4; Human gammaherpesvirus 8; Betapolyomavirus hominis; Betapolyomavirus macacae
Sample organism Homo sapiens
Experiment type Non-coding RNA profiling by array
Non-coding RNA profiling by high throughput sequencing
Summary Recently, next-generation sequencing has been introduced as a promising, new platform for assessing the copy number of transcripts, while the existing microarray technology is considered less reliable for absolute, quantitative expression measurements. Nonetheless, so far, results from the two technologies have only been compared based on biological data, leading to the conclusion that, although they are somewhat correlated, expression values differ significantly. Here, we use synthetic RNA samples, resembling human microRNA samples, to find that microarray expression measures actually correlate better with sample RNA content than expression measures obtained from sequencing data. In addition, microarrays appear highly sensitive and perform equivalently to next-generation sequencing in terms of reproducibility and relative ratio quantification.
Overall design Two artificial samples (sample A and sample B) were constructed by mixing different amounts of 744 synthetic RNAs.
Contributor(s) Willenbrock H, Salomon J, Søkilde R, Hansen TN, Barken KB, Nielsen FC, Møller S, Litman T
Citation(s) 19745027
Submission date Jan 22, 2009
Last update date Feb 21, 2019
Contact name Hanni Willenbrock
Phone +45 45 66 09 85
Organization name DTU
Department Center for Biological Sequence Analysis
Street address Kemikalievej, bygning 208
City Kgs. Lyngby
ZIP/Postal code 2800
Country Denmark
Platforms (3)
GPL7722 miRCURY LNA microRNA Array, v.10.0 - hsa, mmu & rno
GPL7731 Agilent-019118 Human miRNA Microarray 2.0 G4470B (Feature Number version)
GPL9052 Illumina Genome Analyzer (Homo sapiens)
Samples (18)
GSM364514 Illumina sequenced synthetic miRNA sample A
GSM364515 Illumina sequenced synthetic miRNA sample B
GSM364523 Illumina sequenced synthetic miRNA sample A with barcode 1
BioProject PRJNA111655

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
GSE14511_RAW.tar 486.3 Mb (http)(custom) TAR (of TXT, ZIP)
Raw data provided as supplementary file
Processed data included within Sample table

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