Table 1

Top 25 GO.BP affected by both PML knockdown and TNFα treatment
Gene Ontology Biological Process (GO.BP) PML Knockdown TNFα
Gene number q value Gene number q value
Cellular metabolic process 539 3.04E-116 296 9.50E-52
Primary metabolic process 527 4.97E-104 287 1.06E-44
Regulation of cellular process 449 1.71E-75 301 1.92E-60
Macromolecule metabolic process 441 1.25E-81 237 7.06E-34
Biopolymer metabolic process 433 7.96E-80 230 6.54E-32
Cellular macromolecule metabolic process 413 1.71E-78 219 1.87E-31
Cellular biopolymer metabolic process 403 4.47E-75 210 2.56E-28
Biosynthetic process 294 9.75E-49 160 3.39E-21
Cell communication 288 5.37E-52 219 2.97E-56
Cellular biosynthetic process 288 9.70E-48 155 4.47E-20
Nitrogen compound metabolic process 274 6.66E-39 144 7.73E-15
Signal transduction 260 4.09E-45 201 3.61E-51
Protein metabolic process 253 7.52E-57 141 2.06E-27
Nucleobase, nucleoside, nucleotide and nucleic acid metabolic process 240 9.74E-31 119 1.98E-09
Macromolecule biosynthetic process 230 5.36E-35 120 2.81E-13
Cellular protein metabolic process 229 1.32E-56 125 4.20E-26
Cellular macromolecule biosynthetic process 228 1.25E-34 117 2.02E-12
Gene expression 211 5.35E-24 118 3.60E-11
Cellular biopolymer biosynthetic process 209 3.83E-30 106 1.96E-10
Biopolymer biosynthetic process 209 5.59E-30 106 2.34E-10
Transport 201 1.57E-37 124 1.35E-23
Regulation of metabolic process 197 1.26E-21 137 3.76E-20
Multicellular organismal development 193 5.30E-36 159 7.97E-46
Regulation of cellular metabolic process 187 5.51E-20 127 1.92E-17
Regulation of macromolecule metabolic process 173 5.31E-17 121 1.72E-16

Cheng and Kao

Cheng and Kao BMC Genomics 2012 13:453   doi:10.1186/1471-2164-13-453

Open Data