Microarray Publications Database
Supplementary Data Table 5a
MCF-7 EASE results (p<0.05).
MCF-7 time and concentration down-regulated genes
Biological Process | List Hits | List Total | Population Hits | Population Total | One-tailed Fisher exact probability | Gene Symbol |
---|---|---|---|---|---|---|
regulation of actin filament length | 3 | 43 | 6 | 6663 | 4.9E-06 | NEBL; TMSB4X; TMSB4Y |
actin cytoskeleton organization and biogenesis | 4 | 43 | 45 | 6663 | 1.8E-04 | FLNA; NEBL; TMSB4X; TMSB4Y |
actin filament-based process | 4 | 43 | 48 | 6663 | 2.4E-04 | FLNA; NEBL; TMSB4X; TMSB4Y |
regulation of actin polymerization and/or depolymerization | 2 | 43 | 5 | 6663 | 4.0E-04 | TMSB4X; TMSB4Y |
one-carbon compound metabolism | 3 | 43 | 24 | 6663 | 4.6E-04 | CA2; MTHFD2; SHMT2 |
cell organization and biogenesis | 9 | 43 | 399 | 6663 | 8.2E-04 | FLNA; HIST1H2BJ; HIST1H3D; NAP1L4; NEBL; SIPA1; TAF6L; TMSB4X; TMSB4Y |
nucleosome assembly | 3 | 43 | 30 | 6663 | 9.0E-04 | HIST1H2BJ; HIST1H3D; NAP1L4 |
carboxylic acid metabolism | 7 | 43 | 270 | 6663 | 1.5E-03 | ASNS; IARS; MTHFD2; SCD; SHMT2; SLC7A2; TARS |
organic acid metabolism | 7 | 43 | 271 | 6663 | 1.6E-03 | ASNS; IARS; MTHFD2; SCD; SHMT2; SLC7A2; TARS |
actin polymerization and/or depolymerization | 2 | 43 | 11 | 6663 | 2.2E-03 | TMSB4X; TMSB4Y |
amine metabolism | 6 | 43 | 215 | 6663 | 2.4E-03 | ASNS; IARS; SHMT2; SLC7A2; SULT1C1; TARS |
establishment and/or maintenance of chromatin architecture | 4 | 43 | 96 | 6663 | 3.2E-03 | HIST1H2BJ; HIST1H3D; NAP1L4; TAF6L |
DNA packaging | 4 | 43 | 104 | 6663 | 4.3E-03 | HIST1H2BJ; HIST1H3D; NAP1L4; TAF6L |
chromatin assembly/disassembly | 3 | 43 | 53 | 6663 | 4.7E-03 | HIST1H2BJ; HIST1H3D; NAP1L4 |
amino acid metabolism | 5 | 43 | 172 | 6663 | 4.7E-03 | ASNS; IARS; SHMT2; SLC7A2; TARS |
cytoskeleton organization and biogenesis | 5 | 43 | 181 | 6663 | 5.8E-03 | FLNA; NEBL; SIPA1; TMSB4X; TMSB4Y |
chromosome organization and biogenesis (sensu Eukarya) | 4 | 43 | 116 | 6663 | 6.4E-03 | HIST1H2BJ; HIST1H3D; NAP1L4; TAF6L |
muscle maintenance | 1 | 43 | 1 | 6663 | 6.5E-03 | LARGE |
negative regulation of actin filament polymerization | 1 | 43 | 1 | 6663 | 6.5E-03 | TMSB4Y |
anion homeostasis | 1 | 43 | 1 | 6663 | 6.5E-03 | STC1 |
monovalent inorganic anion homeostasis | 1 | 43 | 1 | 6663 | 6.5E-03 | STC1 |
asparagine metabolism | 1 | 43 | 1 | 6663 | 6.5E-03 | ASNS |
sequestering of actin monomers | 1 | 43 | 1 | 6663 | 6.5E-03 | TMSB4Y |
asparagine biosynthesis | 1 | 43 | 1 | 6663 | 6.5E-03 | ASNS |
nuclear organization and biogenesis | 4 | 43 | 118 | 6663 | 6.8E-03 | HIST1H2BJ; HIST1H3D; NAP1L4; TAF6L |
amino acid and derivative metabolism | 5 | 43 | 194 | 6663 | 7.8E-03 | ASNS; IARS; SHMT2; SLC7A2; TARS |
cell growth | 3 | 43 | 70 | 6663 | 1.0E-02 | EMP2; IGFBP5; SIPA1 |
myelination | 1 | 43 | 2 | 6663 | 1.3E-02 | LARGE |
isoleucyl-tRNA aminoacylation | 1 | 43 | 2 | 6663 | 1.3E-02 | IARS |
threonyl-tRNA aminoacylation | 1 | 43 | 2 | 6663 | 1.3E-02 | TARS |
regulation of actin filament polymerization | 1 | 43 | 2 | 6663 | 1.3E-02 | TMSB4Y |
organelle organization and biogenesis | 5 | 43 | 234 | 6663 | 1.7E-02 | FLNA; NEBL; SIPA1; TMSB4X; TMSB4Y |
salivary gland morphogenesis | 1 | 43 | 3 | 6663 | 1.9E-02 | BMP7 |
salivary gland development | 1 | 43 | 3 | 6663 | 1.9E-02 | BMP7 |
folic acid and derivative biosynthesis | 1 | 43 | 4 | 6663 | 2.6E-02 | MTHFD2 |
glycine metabolism | 1 | 43 | 4 | 6663 | 2.6E-02 | SHMT2 |
cytoplasm organization and biogenesis | 5 | 43 | 264 | 6663 | 2.6E-02 | FLNA; NEBL; SIPA1; TMSB4X; TMSB4Y |
actin filament polymerization | 1 | 43 | 5 | 6663 | 3.2E-02 | TMSB4Y |
folic acid and derivative metabolism | 1 | 43 | 5 | 6663 | 3.2E-02 | MTHFD2 |
regulation of cell growth | 2 | 43 | 48 | 6663 | 3.8E-02 | IGFBP5; SIPA1 |
aspartate family amino acid biosynthesis | 1 | 43 | 6 | 6663 | 3.8E-02 | ASNS |
L-serine metabolism | 1 | 43 | 6 | 6663 | 3.8E-02 | SHMT2 |
nerve ensheathment | 1 | 43 | 7 | 6663 | 4.4E-02 | LARGE |
negative regulation of cell adhesion | 1 | 43 | 7 | 6663 | 4.4E-02 | SIPA1 |
nerve maturation | 1 | 43 | 7 | 6663 | 4.4E-02 | LARGE |
glycosphingolipid biosynthesis | 1 | 43 | 7 | 6663 | 4.4E-02 | LARGE |
tRNA aminoacylation for protein translation | 2 | 43 | 53 | 6663 | 4.6E-02 | IARS; TARS |
tRNA aminoacylation | 2 | 43 | 53 | 6663 | 4.6E-02 | IARS; TARS |
amino acid activation | 2 | 43 | 53 | 6663 | 4.6E-02 | IARS; TARS |
tRNA modification | 2 | 43 | 54 | 6663 | 4.7E-02 | IARS; TARS |
MCF-7 time and concentration up-regulated genes
Biological Process | List Hits | List Total | Population Hits | Population Total | One-tailed Fisher exact probability | Gene Symbol |
---|---|---|---|---|---|---|
water-soluble vitamin metabolism | 2 | 41 | 15 | 6663 | 3.7E-03 | PGD; TKT |
sodium:calcium exchange | 1 | 41 | 1 | 6663 | 6.2E-03 | SLC3A2 |
pentose-phosphate shunt, oxidative branch | 1 | 41 | 1 | 6663 | 6.2E-03 | PGD |
glyoxylate cycle | 1 | 41 | 1 | 6663 | 6.2E-03 | IDH1 |
glyoxylate metabolism | 1 | 41 | 1 | 6663 | 6.2E-03 | IDH1 |
vitamin metabolism | 2 | 41 | 23 | 6663 | 8.6E-03 | PGD; TKT |
amino acid transport | 2 | 41 | 27 | 6663 | 1.2E-02 | SLC3A2; SLC7A5 |
thiamin and derivative metabolism | 1 | 41 | 2 | 6663 | 1.2E-02 | TKT |
embryonic eye morphogenesis | 1 | 41 | 2 | 6663 | 1.2E-02 | CYP1B1 |
solute:solute exchange | 1 | 41 | 2 | 6663 | 1.2E-02 | SLC3A2 |
thiamin metabolism | 1 | 41 | 2 | 6663 | 1.2E-02 | TKT |
internal protein amino acid acetylation | 1 | 41 | 2 | 6663 | 1.2E-02 | SAT |
eye morphogenesis (sensu Vertebrata) | 1 | 41 | 2 | 6663 | 1.2E-02 | CYP1B1 |
eye morphogenesis (sensu Mammalia) | 1 | 41 | 2 | 6663 | 1.2E-02 | CYP1B1 |
isocitrate metabolism | 1 | 41 | 2 | 6663 | 1.2E-02 | IDH1 |
amine/polyamine transport | 2 | 41 | 28 | 6663 | 1.3E-02 | SLC3A2; SLC7A5 |
regulation of CDK activity | 2 | 41 | 30 | 6663 | 1.4E-02 | CCNG1; CDKN1A |
negative regulation of cell proliferation | 3 | 41 | 87 | 6663 | 1.6E-02 | BTG2; CDKN1A; NME1 |
GPI anchor biosynthesis | 1 | 41 | 3 | 6663 | 1.8E-02 | PIGF |
GPI anchor metabolism | 1 | 41 | 3 | 6663 | 1.8E-02 | PIGF |
regulation of survival gene product activity | 1 | 41 | 3 | 6663 | 1.8E-02 | BAX |
negative regulation of survival gene product activity | 1 | 41 | 3 | 6663 | 1.8E-02 | BAX |
G2/M transition of mitotic cell cycle | 2 | 41 | 35 | 6663 | 1.9E-02 | CCNG1; CDKN1A |
carboxylic acid transport | 2 | 41 | 37 | 6663 | 2.1E-02 | SLC3A2; SLC7A5 |
organic acid transport | 2 | 41 | 37 | 6663 | 2.1E-02 | SLC3A2; SLC7A5 |
apoptotic mitochondrial changes | 1 | 41 | 4 | 6663 | 2.4E-02 | BAX |
germ-cell development | 1 | 41 | 4 | 6663 | 2.4E-02 | BAX |
protein amino acid acetylation | 1 | 41 | 4 | 6663 | 2.4E-02 | SAT |
G1/S transition of mitotic cell cycle | 2 | 41 | 40 | 6663 | 2.5E-02 | CCNG1; CDKN1A |
NADPH metabolism | 1 | 41 | 5 | 6663 | 3.0E-02 | PGD |
NADPH regeneration | 1 | 41 | 5 | 6663 | 3.0E-02 | PGD |
CTP biosynthesis | 1 | 41 | 5 | 6663 | 3.0E-02 | NME1 |
UTP metabolism | 1 | 41 | 5 | 6663 | 3.0E-02 | NME1 |
UTP biosynthesis | 1 | 41 | 5 | 6663 | 3.0E-02 | NME1 |
pentose-phosphate shunt | 1 | 41 | 5 | 6663 | 3.0E-02 | PGD |
CTP metabolism | 1 | 41 | 5 | 6663 | 3.0E-02 | NME1 |
synaptic transmission, cholinergic | 1 | 41 | 5 | 6663 | 3.0E-02 | NQO1 |
eye morphogenesis | 1 | 41 | 5 | 6663 | 3.0E-02 | CYP1B1 |
pyrimidine ribonucleoside triphosphate metabolism | 1 | 41 | 5 | 6663 | 3.0E-02 | NME1 |
pyrimidine ribonucleoside triphosphate biosynthesis | 1 | 41 | 5 | 6663 | 3.0E-02 | NME1 |
pyrimidine ribonucleotide biosynthesis | 1 | 41 | 6 | 6663 | 3.6E-02 | NME1 |
GTP metabolism | 1 | 41 | 6 | 6663 | 3.6E-02 | NME1 |
GTP biosynthesis | 1 | 41 | 6 | 6663 | 3.6E-02 | NME1 |
pyrimidine ribonucleotide metabolism | 1 | 41 | 6 | 6663 | 3.6E-02 | NME1 |
nicotinamide metabolism | 1 | 41 | 6 | 6663 | 3.6E-02 | PGD |
pyrimidine nucleoside triphosphate metabolism | 1 | 41 | 6 | 6663 | 3.6E-02 | NME1 |
phosphoinositide biosynthesis | 1 | 41 | 6 | 6663 | 3.6E-02 | PIGF |
oncogenesis | 2 | 41 | 50 | 6663 | 3.8E-02 | BAX; CDKN1A |
DNA repair | 3 | 41 | 126 | 6663 | 4.2E-02 | BTG2; CRY1; DDB2 |
covalent chromatin modification | 1 | 41 | 7 | 6663 | 4.2E-02 | HDAC6 |
phosphoinositide metabolism | 1 | 41 | 7 | 6663 | 4.2E-02 | PIGF |
histone deacetylation | 1 | 41 | 7 | 6663 | 4.2E-02 | HDAC6 |
pyridine nucleotide metabolism | 1 | 41 | 7 | 6663 | 4.2E-02 | PGD |
heavy metal sensitivity/resistance | 1 | 41 | 7 | 6663 | 4.2E-02 | TXNRD1 |
nerve-nerve synaptic transmission | 1 | 41 | 7 | 6663 | 4.2E-02 | NQO1 |
histone modification | 1 | 41 | 7 | 6663 | 4.2E-02 | HDAC6 |
aldehyde metabolism | 1 | 41 | 7 | 6663 | 4.2E-02 | IDH1 |
protein modification | 8 | 41 | 655 | 6663 | 4.3E-02 | FBXO22; HDAC6; MAK; MAN1A1; PIGF; PTP4A1; SAT; SIAT4A |
main pathways of carbohydrate metabolism | 2 | 41 | 55 | 6663 | 4.5E-02 | IDH1; PGD |
obsolete biological process | 5 | 41 | 324 | 6663 | 4.7E-02 | BAX; CCNG1; CDKN1A; IER3; TXNRD1 |
prostanoid metabolism | 1 | 41 | 8 | 6663 | 4.8E-02 | MGST1 |
embryonic development (sensu Vertebrata) | 1 | 41 | 8 | 6663 | 4.8E-02 | CYP1B1 |
lipoprotein biosynthesis | 1 | 41 | 8 | 6663 | 4.8E-02 | PIGF |
insulin receptor signaling pathway | 1 | 41 | 8 | 6663 | 4.8E-02 | BAIAP2 |
prostaglandin metabolism | 1 | 41 | 8 | 6663 | 4.8E-02 | MGST1 |
embryonic development (sensu Mammalia) | 1 | 41 | 8 | 6663 | 4.8E-02 | CYP1B1 |
protein lipidation | 1 | 41 | 8 | 6663 | 4.8E-02 | PIGF |