Table 4

Bayesian Biclustering results for yeast expression data

Cluster name

size*

Significant conditions (P value)

Enriched TFBS (P value)

Enriched gene functions (P-value)


ribosome proteins

213,85

nitrogen depletion(7.1e-3), steady state (3.9e-4)

RAP1 (2.9e-60)

ribosomal protein (2.1e-160)

rRNA processing

329,113

steady state (8.9e-4)

ABF1 (5.2e-4), PAC (1.2e-127), RRPE (2.7e-63)

rRNA processing (4.3e-77), nucleic acid binding (1.6e-25)

ubiquitin

113,88

diamide stress(4.2e-3), menadione stress(2.7e-2)

RPN4 (4e-12)

ubiquitin / proteasomal pathway (8.3e-12)

oxidative stress

40,38

hydrogen peroxide stress (4.8e-8), menadione stress(4e-7), diamide stress (3.2e-6)

CAD1(5.7e-15), YAP1(1.9e-15)

oxidative stress response (9.3e-8), metabolism of phenylalanine (4.2e-8), metabolism of tyrosine (2.7e-8)

respiration

55,97

steady state(1.8e-7)

HAP4 (1.3e-16), SKN7(6.3e-8), MSN24a(7.4e-4)

respiration (2.5e-38), electron transport and membrane-associated energy conservation (5.1e-45)

purin metabolism

42,48

menadione stress (4.1e-6), amino acid starvation (4.8e-3)

BAS1 (3.2e-5)

purin nucleotide/nucleoside/nucleobase anabolism (6.2e-10)

stress response and protein folding

48,46

heat shock (4.5e-7), diamide stress (1.7e-4), osmolarity stress (6.5e-4) , MSN2/4 and YAP1 deletion (3.8e-3)

HSF1 (4.7e-3),

protein folding and stabilization (8e-8), stress response(3.0e-5)

stress response and heat shock

87,191

heat shock (5.2e-3)

HSF1 (1.5e-3), MSN24 (6.1e-11), MSN24a (9.6e-11), STRE (1.0e-5), GIS1 (1.9e-4)

C-compound and carbohydrate metabolism (1.0e-3), energy (7.4e-4)

cell cycle

86,87

α factor (3.5e-8), cdc15 (3.7e-8), cdc28 (4.5e-2), elu (4.0e-6)

MCM1 (1.0e-10), SWI4 (4.16e-7), FKH1 (6.6e-7), MBP1(3.6e-4), TATA (1.3e-4)

cell cycle and DNA processing (5.1e-9), cytokinesis (cell division) (2.9e-6), pheromone response (7.6e-4)

DNA topology

35,45

cln3, clb2 (2.1e-2)

GCN4(4.3e-6), MBP1 (2.0e-5), MCM1 (3.2e-3), SWI4 (1.1e-3), XBP1 (1.3e-5)

DNA topology (1.3e-22), somatic/ mitotic recombination (8.9e-9)

cell cycle (G1 phase)

108,62

α factor (3.35e-11), cdc 15 (2.5e-10), cdc28 (7.8e-6)

MBP1 (3.7e-14), SWI4 (6.4e-5)

cell cycle and DNA processing (1.4e-12)

nitrogen, sulfur & selenium metabolism

37,16

amino acid starvation (1.2e-5), nitrogen depletion (4.2e-2)

CBF1(3.3e-7), GCN4 (7.3e-5), MET31 (8.7e-4), MET4(1e-7)

amino acid metabolism (1.5e-30), nitrogen, sulfur and selenium metabolism (1.3e-13)

glycolysis regulation

38,78

Disulfide-reducing agent stress (1.6e-4), diamide (1.5e-3)

GCR1 (4.6e-3)

sugar, glucoside, polyol and carboxylate catabolism (3.3e-10), glycolysis and gluconeogenesis (3.1e-11)


*size:(the number of genes in the cluster, the number of conditions in the cluster)

Gu and Liu BMC Genomics 2008 9(Suppl 1):S4   doi:10.1186/1471-2164-9-S1-S4

Open Data