Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.15.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95667	0.61
27DAP/17DAP	0.87576	0.836
39DAP/27DAP	1.34314	0.558
41DAP/39DAP	0.98809	0.944
42DAP/41DAP	0.85499	1
43DAP/42DAP	0.87498	0.77
47DAP/43DAP	1.0533	0.92
52DAP/47DAP	1.62383	0.414
57DAP/52DAP	1.0158	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23211	0.132
17DAP/reference	1.11582	0.092
27DAP/reference	0.93847	0.304
39DAP/reference	0.94753	0.381
41DAP/reference	1.02758	0.667
42DAP/reference	1.09368	0.241
43DAP/reference	0.91367	0.148
47DAP/reference	0.85173	0.071
52DAP/reference	0.79535	0.029
57DAP/reference	0.70332	0.013

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11757	0.642
27DAP/17DAP	1.10466	0.9
39DAP/27DAP	0.83174	0.191
41DAP/39DAP	1.24944	0.417
42DAP/41DAP	0.85093	0.481
43DAP/42DAP	1.19328	0.273
47DAP/43DAP	1.04404	1
52DAP/47DAP	1.18778	0.589
57DAP/52DAP	1.21343	0.411
57DAP/7DAP	1.53521	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87352	0.203
17DAP/reference	0.70346	0.011
27DAP/reference	0.94633	0.283
39DAP/reference	1.19402	0.077
41DAP/reference	1.32272	0.177
42DAP/reference	1.098	0.686
43DAP/reference	1.21797	0.226
47DAP/reference	1.19236	0.052
52DAP/reference	1.09733	0.459
57DAP/reference	0.97798	0.513

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01909	0.695
17DAP/reference	1.20469	0.074
27DAP/reference	1.06167	0.726
39DAP/reference	1.1307	0.502
41DAP/reference	1.06426	0.91
42DAP/reference	1.09156	0.596
43DAP/reference	1.11091	0.401
47DAP/reference	1.06159	0.353
52DAP/reference	1.08194	0.029
57DAP/reference	1.138	0.123

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.71264	0.036
17DAP/reference	0.95327	0.488
27DAP/reference	0.87849	0.206
39DAP/reference	0.98783	0.755
41DAP/reference	1.0368	0.777
42DAP/reference	0.89975	0.087
43DAP/reference	0.83162	0.073
47DAP/reference	1.02298	0.901
52DAP/reference	1.0759	0.854
57DAP/reference	0.84088	0.116

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09474	1
26DAP/20DAP	1.17532	0.587
34DAP/26DAP	0.98551	0.998
51DAP/34DAP	0.48061	0.071
52DAP/51DAP	0.85363	1
53DAP/52DAP	1.20099	0.458
55DAP/53DAP	1.06036	1
57DAP/55DAP	1.06211	0.935
62DAP/57DAP	1.02705	1
68DAP/62DAP	0.84022	0.609
68DAP/14DAP	0.61859	0.09

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.20929	0.865

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.28428	0.018
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.1188	0.224
Mature Eggplant/Ripe Tomato	0.08166	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.79942
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.03868
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.23959	1
WT/WTpooled	1.03404	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	1.42633	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01419	0.921
DC3000/delta hrp 6h	0.98759
DC3000/delta hrp 12h	0.82924	1
DC3000/delta hrp 24h	1.59097	0.072

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.90314	1
Exp 36h	1.73945	0.489
Exp 60h	1.33211	0.215

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98785	1
Var 0h	1.11681	0.98
Var 12h I row2-row1	1.48608	0.692
Var 12h NI row2-row1	1.03959	1
Var 36h I row2-row1	1.01346	1
Var 36h NI row2-row1	0.59201	0.645
Var 60h I row2-row1	1.23903	0.562
Var 60h NI row2-row1	1.01143	1
Time course 0hI-0hNI	0.97807	0.93
Time course 12hI-12hNI	1.04095	0.668
Time course 36hI-36hNI	1.13563	0.218
Time course 60hI-60hNI	2.6379	0.115

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)	1.42297	0.273
transgenic ySAMdc/azygous control (breaker)	0.49687	0.134
transgenic ySAMdc/azygous control (red)	1.40999	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02748	0.213

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.03783	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.87769	1
Manapal/WT (break)	0.86149	1
Manapal/WT (red)	0.59499	0.181