Gene expression profiles value

A gene expression profile consists of a single description line, starting with > , followed by one or more data lines. The data consist of elements, separated by a space or a new line. Each element consists of a UniGene identifier and an expression value separated by a colon. 

Wijnands MV, van Erk MJ, Doornbos RP, Krul CA, Woutersen RA. 2004. Do aberrant crypt foci have predictive value for the occurrence of colorectal tumours Potential of gene expression profiling in tumours. Food Chem Toxicol 42 1629-1639. 

The HC algorithm requires choice of a distance measure and linkage method. The distance measure quantifies the similarity or dissimilarity between two gene expression profiles. The Euclidean distance and the Pearson correlation (PC) coefficient have been widely used as distance measures to quantify the similarity between profiles. The centered PC similarity measure, r, between any two series of numbers X = [Xt, X2,..., X and Y = Yi, Y2,..., Y is the familiar PC coefficient used in linear regression. The distance measure is obtained by subtracting the correlation value from unity. The uncentered PC is obtained from the centered PC by setting the means of X and Y to zero. The uncentered PC is defined as... 

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