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In the present study, we used a very simple statistical model for microarray data processing (see Methods).
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For full details on data processing, see Supplemental Methods.
Accordingly, the application allows three levels of interaction: interface, score processing and data processing (see below).
Array data (See Additional file 18) were normalized using the NimbleGen microarray data processing pipeline (NMPP) [ 65].
Thus, understanding microarray data processing steps becomes critical for performing optimal microarray data analysis.
These biases were corrected with the script SpatialSmooth of NMPP software (NimbleGen Microarray Data Processing Pipeline - NMPP) (Wang et al. 2006) through a global distance-weighted smoothing algorithm.
Extracted microarray data were analyzed by using NMPP, a user-customized NimbleGen microarray data processing pipeline [72].
The methods used for microarray data processing have been described in detail previously [47].
We have presented a complete work-flow for temporal microarray data processing.
We thank Drs Pengcheng Du and Luxi Wang from ICDC for their technical assistance with microarray data processing.
CG and RT contributed to microarray data processing.
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