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Series GSE463 Query DataSets for GSE463
Status Public on Jul 16, 2003
Title Profiling of human bone marrow stromal cell lines HS-5 and HS-27a
Organism Homo sapiens
Experiment type Expression profiling by array
Summary The microarrays were constructed using a set of more than 17,000 sequence-verified clones from Research Genetics (Huntsville, AL). Of the 17,761 features (spots) on the microarray, 186 are control nonexpressed or nonhuman sequences or housekeeping genes. UniGene cluster IDs could be assigned by GenBank to 16,592 of the features as of June 1, 2001 (UniGene Build 133), indicating that they are representatives of nonredundant unique genes. Many have been functionally characterized, and chromosomal location and tissue expression patterns are known for others. Total RNA was isolated from semiconfluent cultures and reverse-transcribed into cDNA in a nucleotide mix containing amino-allyl deoxyuracil triphosphate (dUTP). The cDNA from stromal cells and Universal RNA (Stratagene, La Jolla, CA) was covalently coupled separately with Cy5 and Cy3 monoreactive fluors, respectively. The Universal RNA consists of a mixture of RNA from 10 different human cell lines with a broad expression coverage of over 80% of the sequences on the array, allowing comparison of expression patterns of multiple different samples of different origin. The Cy5- and Cy3-labeled cDNAs were combined for hybridization to the microarray. Fluorescent array images were collected for both Cy3 and Cy5, and image-intensity data were extracted and analyzed to obtain expression ratios to Universal RNA for each stromal cell line. From these the expression in the 2 lines could be compared.
Keywords: other
Contributor(s) Graf L, Iwata M, Torok-Storb B
Citation(s) 12184274
Submission date Jun 25, 2003
Last update date Jan 18, 2013
Contact name Mineo Iwata
Phone 206-667-4545
Fax 206-667-5978
Organization name Fred Hutchinson Cancer Research Institute
Department Clinical Research
Lab Torok-Storb
Street address 1100 Fairview Ave. N. D1-100
City Seattle
State/province WA
ZIP/Postal code 98109
Country USA
Platforms (1)
GPL44 FHCRC Human 18K Array
Samples (8)
GSM834 HS-5_10
GSM835 HS-5_06
GSM836 HS-5_05
BioProject PRJNA85071

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