Fig 1.
Microarray experiment steps (phases).
Table 1.
Frequency of hits: method name along with “differentially expressed genes” and “gene expression” phrases (Google Scholar, PubMed).
Table 2.
Arraysets Characteristics.
Fig 2.
Arraysets preparation process.
Table 3.
Parameters that were fixed for each method of high-level analysis (for the purpose of experiments).
Table 4.
DEGs detected in Arraysets by different methods (22,283 in all).
Fig 3.
Venn diagram for Arrayset1.
Fig 4.
Distribution of values in Dataset1.
Fig 5.
Distribution of values in Dataset2.
Table 5.
Number of aDEGs detected and assessment parameters used for each method in Dataset1 (in bold—the best, in italics—the worst).
Table 6.
Summary of excessed aDEGs by each method.
Table 7.
Number of aDEGs detected and assessment parameters by each method in Dataset2 (in bold—the best, in italics—the worst).
Table 8.
Summary of excessed aDEGs by each method.
Table 9.
Overall scoring of methods for the Datasets (one plus equals one point; the more, the better).