TABLE 2.

Frequency distribution of differentially expressed genes among 25 functional categories

Functional category325-gene set317-gene set
No.DescriptionNo. of genes on macroarrayafobfecSignificancedNo. of genes on microarrayafobfecSignificanced
1Amino acid metabolism57169*156189*
2Nitrogen and sulfur metabolism19235153
3Nucleotide metabolism42117*104186*
4Phosphate metabolism11122652*
5C-compound and carbohydrate metabolism10112172482915*
6Lipid, fatty acid, and isoprenoid metabolism711612*1591010
7Metabolism of vitamins30257124
8Secondary metabolism110500
9Energy57691632010*
10Cell cycle and DNA processing1511925452927
11Transcription1884431*5622534
12Protein synthesis793413*2547115*
13Protein fate16214264791629
14Intracellular transport10918183621322
15Cellular communication and signal transduction16334323
16Cell rescue6481014379
17Regulation of and interaction with the environment483813658
18Cell fate112418*290917
19Transposons and others100400
20Control of cellular organization56139*15349
21Subcellular localization60610699*1,675145101*
22Protein activity regulation200800
23Transport facilitation6010101841011
24Unclassified2766045*9904360
25No homology to S. cerevisiae741971212,36680142
  • a Number of genes spotted on the macro- or microarray that belong to each category. Many genes are included in several categories according to the MIPS classification of S. cerevisiae.

  • b Observed frequency of genes falling into a given functional category.

  • c Expected frequency of genes falling into a given functional category in a random set of 325 or 317 genes, respectively.

  • d Categories that are significantly over or underrepresented (calculated on the basis of the F-Snedecor approximation with P = 0.975) are indicated by an asterisk. For both sets, distribution of observed and expected frequencies differs significantly, as tested by a χ[24;0.01]2 test.