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Figure 3 | BMC Bioinformatics

Figure 3

From: Quality control and quality assessment of data from surface-enhanced laser desorption/ionization (SELDI) time-of flight (TOF) mass spectrometry (MS)

Figure 3

Heat map of correlation matrix of the 144 spectra from quality control samples. The Pearson product-moment correlation coefficient (R) is a measure of the degree of linear relationship between two spectra. A higher correlation indicates a more similar protein expression pattern between two samples for the two spectra. Each row and column in the heat map of the correlation matrix represents a spectrum. Each point is a Pearson correlation coefficient, R, between the spectrum in the column and the spectrum in the row. The correlation coefficients were colored by the values of R. The higher the value of R, the brighter red is the data point. The lower the value of R, the brighter green is the data point. All 144 data points in one row (same for column) represent the correlation of one spectrum to all other spectra. Therefore, the green line indicates the spectrum does not correlate well to other spectra. The correlation matrix was calculated using software JMP 5.1 http://www.jmp.com and the heat map was created using the software DMVS 2.0 (Shenzhen Chipscreen Biosciences, Ltd, Shenzhen, P. R. China, http://www.chipscreen.com)

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