๐”– Bobbio Scriptorium
โœฆ   LIBER   โœฆ

Statistical Designs for Two-Color Spotted Microarray Experiments

โœ Scribed by Feng-Shun Chai; Chen-Tuo Liao; Shin-Fu Tsai

Publisher
John Wiley and Sons
Year
2007
Tongue
English
Weight
122 KB
Volume
49
Category
Article
ISSN
0323-3847

No coin nor oath required. For personal study only.

โœฆ Synopsis

Abstract

Twoโ€color cDNA or oligonucleotideโ€based spotted microarrays have been commonly used in measuring the expression levels of thousands of genes simultaneously. To realize the immense potential of this powerful new technology, budgeted within limited resources or other constraints, practical designs with high efficiencies are in demand. In this study, we address the design issue concerning the arrangement of the mRNA samples labeled with fluorescent dyes and hybridized on the slides. A normalization model is proposed to characterize major sources of systematic variation in a twoโ€color microarray experiment. This normalization model establishes a connection between designs for twoโ€color microarray experiments with a particular class of classical rowโ€column designs. A heuristic algorithm for constructing Aโ€optimal or highly efficient designs is provided. Statistical optimality results are found for some of the designs generated from the algorithm. It is believed that the constructed designs are the best or very close to the best possible for estimating the relative gene expression levels among the mRNA samples of interest. (ยฉ 2007 WILEYโ€VCH Verlag GmbH & Co. KGaA, Weinheim)

๐Ÿ“œ SIMILAR VOLUMES

Experimental designs for 2-colour cDNA m
Experimental designs for 2-colour cDNA microarray experiments
โœ Nam-Ky Nguyen; E. R. Williams ๐Ÿ“‚ Article ๐Ÿ“… 2006 ๐Ÿ› John Wiley and Sons ๐ŸŒ English โš– 233 KB

## Abstract Kerr and Churchill (__Biostatistics__ 2001; **2**:183โ€“201) showed how varieties (e.g. type of tissues, drug treatments, etc.) are paired onto arrays by a catalogue of Aโ€optimal incomplete block designs (IBDs) for 6โ€“10 varieties (__v__), and number of blocks of size 2 between __v__ and $

Reassessing design and analysis of two-c
Reassessing design and analysis of two-colour microarray experiments using mixed effects models
โœ Guilherme J. M. Rosa; Juan P. Steibel; Robert J. Tempelman ๐Ÿ“‚ Article ๐Ÿ“… 2005 ๐Ÿ› Hindawi Publishing Corporation ๐ŸŒ English โš– 161 KB

Gene expression microarray studies have led to interesting experimental design and statistical analysis challenges. The comparison of expression profiles across populations is one of the most common objectives of microarray experiments. In this manuscript we review some issues regarding design and s

STATISTICAL METHODS FOR TWO-SEQUENCE THR
STATISTICAL METHODS FOR TWO-SEQUENCE THREE-PERIOD CROSS-OVER DESIGNS WITH INCOMPLETE DATA
โœ SHEIN-CHUNG CHOW; JUN SHAO ๐Ÿ“‚ Article ๐Ÿ“… 1997 ๐Ÿ› John Wiley and Sons ๐ŸŒ English โš– 211 KB

In clinical trials, and in bioavailability and bioequivalence studies, one often encounters replicate cross-over designs such as a two-sequence three-period cross-over design to assess treatment and carry-over effects of two formulations of a drug product. Because of the potential dropout (or for so

Two-stage global search designs for link
Two-stage global search designs for linkage analysis I: Use of the mean statistic for affected sib pairs
โœ Xiuqing Guo; Robert C. Elston ๐Ÿ“‚ Article ๐Ÿ“… 2000 ๐Ÿ› John Wiley and Sons ๐ŸŒ English โš– 72 KB ๐Ÿ‘ 3 views

Two-stage global search designs for linkage analysis using pairs of affected relatives were shown by Elston et al. [1996] to typically halve the cost of a study compared to a one-stage design. The statistic used for testing linkage in that study was based on the proportion of pairs sharing no marker