E-GEOD-11840 - miRNA Microarray Profiling with Three Different Total RNA Prep Methods

Status
Submitted on 18 June 2008, released on 19 August 2008, last updated on 10 June 2011
Organism
Homo sapiens
Samples (42)
Array (1)
Protocols (14)
Description
We performed miRNA microarray profiling on samples prepared from two different cell lines by three widely-used total RNA sample prep methods. miRNA microarrays were manufactured by Agilent Technologies (Santa Clara, CA), and contain 20-40 features targeting each of 470 human miRNAs (Agilent design ID 016436). Sequences of the 470 miRNAs were obtained from the Sanger miRBase, release 9.1. Labeling and hybridization of total RNA samples were performed according to the manufacturer’s protocol. 100ng total RNA was used as input into the labeling reaction, and the entire reaction was hybridized to the array for 20 hours at 55°C. For total RNA preps, frozen cell pellets were resuspended in phosphate buffered saline and divided into equal aliquots of 5x106 (HeLa) or 1x107 (ZR-75-1) cells and refrozen. Individual aliquots were subsequently thawed just before use.
Experiment type
transcription profiling by array 
Contacts
Robert Ach, Bo Curry, Hui Wang, Robert A Ach
Citation
Measuring microRNAs: comparisons of microarray and quantitative PCR measurements, and of different total RNA prep methods. Ach RA, Wang H, Curry B.
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-GEOD-11840.idf.txt
Sample and data relationshipE-GEOD-11840.sdrf.txt
Raw data (1)E-GEOD-11840.raw.1.zip
Processed data (1)E-GEOD-11840.processed.1.zip
Experiment designE-GEOD-11840.biosamples.png, E-GEOD-11840.biosamples.svg
Array designA-GEOD-6968.adf.txt
Links