Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.5.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06365	0.827
27DAP/17DAP	0.99587	1
39DAP/27DAP	1.13387	0.853
41DAP/39DAP	1.09246	0.504
42DAP/41DAP	1.19068	0.82
43DAP/42DAP	1.07466	1
47DAP/43DAP	1.16393	0.474
52DAP/47DAP	0.89888	0.683
57DAP/52DAP	0.96041	0.923

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0204	1
17DAP/reference	0.96712	0.503
27DAP/reference	0.99336	0.763
39DAP/reference	1.06251	0.486
41DAP/reference	1.12354	0.241
42DAP/reference	1.09571	0.084
43DAP/reference	1.05114	0.445
47DAP/reference	1.17299	0.085
52DAP/reference	1.01748	1
57DAP/reference	1.05523	0.6

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0393	0.736
27DAP/17DAP	0.86587	0.363
39DAP/27DAP	1.07982	0.581
41DAP/39DAP	0.98666	0.98
42DAP/41DAP	1.10129	0.719
43DAP/42DAP	1.24957	0.554
47DAP/43DAP	1.10382	0.798
52DAP/47DAP	1.14189	0.616
57DAP/52DAP	0.94538	0.587
57DAP/7DAP	0.54845	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09843	0.511
17DAP/reference	1.08187	0.627
27DAP/reference	1.09851	0.664
39DAP/reference	0.91542	0.095
41DAP/reference	0.99893	0.741
42DAP/reference	1.22639	0.059
43DAP/reference	1.12135	0.788
47DAP/reference	1.04488	0.915
52DAP/reference	1.02899	0.832
57DAP/reference	0.96121	0.411

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.27453	0.36
17DAP/reference	1.17881	0.131
27DAP/reference	1.18201	0.373
39DAP/reference	1.06314	0.67
41DAP/reference	1.03261	0.925
42DAP/reference	1.11586	0.61
43DAP/reference	1.32993	0.284
47DAP/reference	1.18864	0.022
52DAP/reference	0.93616	0.351
57DAP/reference	1.29064	0.119

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87567	0.214
17DAP/reference	1.14231	0.436
27DAP/reference	1.11326	0.621
39DAP/reference	1.05046	0.496
41DAP/reference	0.88668	0.107
42DAP/reference	0.9594	0.552
43DAP/reference	0.89458	0.137
47DAP/reference	1.14114	0.027
52DAP/reference	0.94948	0.582
57DAP/reference	1.31472	0.044

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12532	0.966
26DAP/20DAP	1.37657	0.293
34DAP/26DAP	1.16775	1
51DAP/34DAP	0.86099	0.606
52DAP/51DAP	1.09142	0.904
53DAP/52DAP	0.85437	0.489
55DAP/53DAP	0.80861	0.293
57DAP/55DAP	1.0565	0.986
62DAP/57DAP	1.17191	0.833
68DAP/62DAP	1.26415	0.792
68DAP/14DAP	0.79427	0.375

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.95106	0.061

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.88412	0.39
Mature Green Tomato/Ripe Tomato	1.09434	0.881
Immature Eggplant/Mature Eggplant	0.95605	0.72
Ripe Pepper/Ripe Tomato	1.21985	1
Mature Eggplant/Ripe Tomato	1.1418	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00923
1-1-2/M82	1.2032
12-2/M82	0.87968	0.955
12-4/M82	0.97658	1
1-3/M82	2.08767
2-1-1/M82	0.98011	1
2-1/M82	N/A	N/A
2-6/M82	0.8839	1
3-2/M82	1.54708
4-1-1/M82	N/A	N/A
4-1/M82	0.97336
4-3-2/M82	1.2923
4-3/M82	0.95896	1
5-3/M82	1.05711	1
6-2/M82	1.10473	0.253
6-3/M82	0.77711	0.982
7-1/M82	0.94961	0.803
7-2/M82	1.03875
9-3-2/M82	1.04119	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.92739	1
IL2-6/WTpooled	0.93357	1
IL7-5/WTpooled	0.84405	1
IL7-3/WTpooled	1.09595	1
IL12-4/WTpooled	0.76972	0.478
IL1-4/WTpooled	1.0817	1
WT/WTpooled	0.81597	1

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	1.03691	1

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03232	1
DC3000/delta hrp 6h	0.86913	0.95
DC3000/delta hrp 12h	1.02418	1
DC3000/delta hrp 24h	0.92672	0.543

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	1.46191	0.166

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.03211	1
Exp 36h	1.2265	0.693
Exp 60h	1.23653	0.399

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	0.99616	1
Var 0h	0.94681	1
Var 12h I row2-row1	1.10477	0.283
Var 12h NI row2-row1	0.93387	0.82
Var 36h I row2-row1	1.06833	1
Var 36h NI row2-row1	0.74895	1
Var 60h I row2-row1	1.01851	1
Var 60h NI row2-row1	0.95936	1
Time course 0hI-0hNI	0.91527	0.359
Time course 12hI-12hNI	1.05507	0.684
Time course 36hI-36hNI	1.58526	0.005
Time course 60hI-60hNI	3.52572	0.008

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	1.03052	0.511
transgenic ySAMdc/azygous control (breaker)	0.89529	0.49
transgenic ySAMdc/azygous control (red)	0.92793	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02406	0.155

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.73397	0.238

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.03229	1
Manapal/WT (break)	1.11409	1
Manapal/WT (red)	1.34123	0.133