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Series GSE31946 Query DataSets for GSE31946
Status Public on Sep 08, 2011
Title Factors affecting the yield of microRNAs from laser microdissectates of formalin-fixed tissue sections
Platform organisms Homo sapiens; Mus musculus; Rattus norvegicus; Human alphaherpesvirus 1; Human alphaherpesvirus 2; Human betaherpesvirus 5; Murid betaherpesvirus 1; human gammaherpesvirus 4; JC polyomavirus; Human immunodeficiency virus 1; Murid gammaherpesvirus 4; Human gammaherpesvirus 8; Merkel cell polyomavirus; Mus musculus cytomegalovirus 2; Betapolyomavirus hominis; Betapolyomavirus macacae
Sample organism Homo sapiens
Experiment type Non-coding RNA profiling by array
Summary Sixth generation Exiqon® locked nucleic acid miRCURY™ LNA microarrays were used to profile in duplicate the expression of microRNAs in 250 or 400 ng of RNA isolated from a laser microdissectate of a formalin-fixed and paraffin-embedded human non-small cell lung cancer tumor.
Overall design Laser microdissection was performed on a hematoxylin-eosin-stained, 8 um-thick section of formalin-fixed and paraffin-embedded tissue. The microdissectate was treated with proteinase K overnight at 55 ºC. Total RNA from the lysate was then extracted using FFPE RNA Isolation Kit from Norgen Biotek® (Thorold, Canada). RiboGreen assay was used to quantify RNA in the preparation. Two-hundred-fifty or 400 ng of RNA was used in duplicate for dual-channel microarray-based microRNA expression profiling.
Sample RNA was labeled with the Cy3-like Hy3™ dye, mixed with a human universal reference RNA (product number AM6000, Ambion®, Austin, TX) labeled with the Cy5-like Hy5™ dye, and hybridized to the two-color miRCURY™ arrays.
Contributor(s) Patnaik SK, Kannisto E, Yendamuri S
Citation(s) 22260539
Submission date Sep 07, 2011
Last update date May 10, 2016
Contact name Santosh Kumar Patnaik
Phone 716-8458364
Organization name Roswell Park Comprehensive Cancer Center
Department Thoracic Surgery
Street address Elm and Carlton Streets
City Buffalo
State/province NY
ZIP/Postal code 14263
Country USA
Platforms (1)
GPL11434 miRCURY LNA microRNA Array, 6th generation - hsa, mmu & rno
Samples (4)
GSM791686 250 ng, duplicate 1
GSM791687 250 ng, duplicate 2
GSM791688 400 ng, duplicate 1
BioProject PRJNA145011

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Supplementary file Size Download File type/resource
GSE31946_RAW.tar 8.8 Mb (http)(custom) TAR (of TXT)
Processed data included within Sample table

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