By Kimberly F. Johnson, Simon M. Lin
As microarray know-how has matured, facts research tools have complex to boot. Methods Of Microarray information research III is the 3rd publication during this pioneering sequence devoted to the prevailing new box of microarrays. whereas preliminary strategies inquisitive about type workouts (volume I of this series), and in a while development extraction (volume II of this series), this quantity makes a speciality of information caliber concerns. difficulties similar to history noise decision, research of variance, and error in info dealing with are highlighted.
Three instructional papers are awarded to help with a simple knowing of underlying ideas in microarray information research, and twelve new papers are highlighted examining an identical CAMDA'02 datasets: the undertaking common information set or the Affymetrix Latin sq. info set. A comparative examine of those analytical methodologies brings to mild difficulties, strategies and new rules. This booklet is a wonderful reference for tutorial and business researchers who are looking to retain abreast of the nation of artwork of microarray information research.
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Extra resources for Methods of Microarray Data Analysis III: Papers from CAMDA’ 02
Sample number 4 is clearly detected as an outlier by this procedure. Other outlier-resistant outlier detection procedures may be developed by replacing the mean and standard deviation in the rule with other alternatives. One alternative to the mean is the trimmed mean, discussed further in Section 4, and various alternatives to the standard deviation are possible [Rousseeuw and Croux, 1993], including the interquartile distance (IQD), defined as the distance between the upper quartile (the smallest data 48 Pearson et al.
Image metrics in the statistical analysis of DNA microarray data. Proc Natl Acad Sci U S A . 2001; 98:8944-9. Chen Y, Kamat V, Dougherty ER, Bittner ML, Meltzer PS, Trent JM. Ratio statistics of gene expression levels and applications to microarray data analysis. Bioinformatics. 2002; 18:1207-15. Dunmire V, Wu C, Symmans WF, Zhang W. Increased yield of total RNA from fine-needle aspirates for use in expression microarray analysis. Biotechniques. 2002; 33:890-896. Hegde P, Qi R, Abernathy K, Gay C, Dharap S, Gaspard R, Hughes JE, Snesrud E, Lee N, Quackenbush J.
ISSUES FOR MICROARRAYS As the above sections indicate, the cell is a complex machine that evolution has guided to allow it to respond to external threats, survive under multiple conditions, and, in multicellular organisms, cooperate for the good of the greater organism. Evolution occurs through the borrowing of function, the recombination of existing functions into new ones, and the copying and modification of existing functions. The result is that proteins, the primary functional components, have multiple roles and multiple partners allowing the cell to vary the response to a stimulus based on other stimuli, the external environment including other cells, and on internal state.