Dataset features

Specifications


Application: Gene expression microarray analysis
Number of samples: 6
Release date: Jul 20 2012
Last update date: Jul 22 2012
Access: Public
Taxon: Bos taurus, Homo sapiens
Dataset link Gene expression in attached vs. released collagen matrices populated with human foreskin fibroblasts

Experimental Protocol


Refer to the attached Figure 1 for the experimental design. The index experiment was defined as the comparison of gene expression in attached vs. released collagen matrices in a single strain of human foreskin fibroblasts at 6 and 24 hr after stress-release (i.e., after t = 0). Each experiment utilized two mechanical conditions (attached and released) at two time points (6 and 24 hr). So with each condition utilizing 6 matrices, each index experiment required a total of 24 matrices. In each index experiment, the chip hybridizations were: (i) 6 hr attached vs. 6 hr released, and (ii) 24 hr attached vs. 24 hr released (i.e., two gene chips per index experiment). Each hybridization was done using a 10K spotted gene chip manufactured in the UNMC Microarray Core Facility. The index experiment was performed on three fibroblast strains, meaning that expressional data was derived from three foreskin donors (nonpooled samples). Dye-swap was not performed; dye assigned to attached vs. released remained constant among all chips. Since the index experiment was performed three times, the total number of gene chips used for this entire dataset was six.

Repositories


GEO

GSE39475

ArrayExpress

E-GEOD-39475

BioProject

PRJNA170970

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Contact


Mark Carlson
Mark A. Carlson