Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.17.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07994	0.961
27DAP/17DAP	0.89323	0.749
39DAP/27DAP	1.03781	0.84
41DAP/39DAP	1.05863	0.929
42DAP/41DAP	0.92941	1
43DAP/42DAP	1.25734	0.768
47DAP/43DAP	1.33165	0.889
52DAP/47DAP	1.6058	0.654
57DAP/52DAP	0.95029	0.923

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03749	0.96
17DAP/reference	1.02384	0.631
27DAP/reference	1.00297	0.797
39DAP/reference	0.96919	0.638
41DAP/reference	1.03397	0.552
42DAP/reference	0.85882	0.012
43DAP/reference	1.00762	0.904
47DAP/reference	0.87603	0.013
52DAP/reference	0.85264	0.093
57DAP/reference	0.84173	0.047

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.4985	0.129
27DAP/17DAP	0.89799	0.821
39DAP/27DAP	1.15181	1
41DAP/39DAP	1.57753	0.08
42DAP/41DAP	0.90423	0.402
43DAP/42DAP	0.80358	0.181
47DAP/43DAP	0.96594	0.857
52DAP/47DAP	1.02637	0.965
57DAP/52DAP	1.05393	0.926
57DAP/7DAP	0.72359	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23788	0.135
17DAP/reference	0.9451	0.22
27DAP/reference	1.03764	0.974
39DAP/reference	1.14412	0.46
41DAP/reference	0.9741	0.489
42DAP/reference	0.91953	0.289
43DAP/reference	0.95871	0.403
47DAP/reference	0.95816	0.504
52DAP/reference	0.87802	0.15
57DAP/reference	1.0024	0.648

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20334	0.315
17DAP/reference	0.89132	0.195
27DAP/reference	0.91998	0.229
39DAP/reference	0.91778	0.227
41DAP/reference	0.99287	0.584
42DAP/reference	0.95529	0.392
43DAP/reference	0.96616	0.539
47DAP/reference	1.00805	0.749
52DAP/reference	1.03732	0.938
57DAP/reference	1.08325	0.688

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20408	0.347
17DAP/reference	0.94503	0.499
27DAP/reference	1.0901	0.596
39DAP/reference	1.18838	0.39
41DAP/reference	1.03132	0.714
42DAP/reference	0.91293	0.172
43DAP/reference	0.96376	0.503
47DAP/reference	0.89836	0.132
52DAP/reference	1.21883	0.779
57DAP/reference	0.8247	0.048

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94949	1
26DAP/20DAP	1.83071	0.115
34DAP/26DAP	0.62709	0.112
51DAP/34DAP	1.03005	0.957
52DAP/51DAP	1.10407	1
53DAP/52DAP	0.71028	0.231
55DAP/53DAP	0.78179	0.303
57DAP/55DAP	1.16306	0.968
62DAP/57DAP	1.00707	1
68DAP/62DAP	0.94158	0.722
68DAP/14DAP	0.75185	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.62792	0.097

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	46.5109	0.032
Mature Green Tomato/Ripe Tomato	13.2891	0.015
Immature Eggplant/Mature Eggplant	5.59262	0.05
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	23.5746

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	0.90109
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	1.0251
IL2-6/WTpooled	1.00796	1
IL7-5/WTpooled	0.62513
IL7-3/WTpooled	0.82455
IL12-4/WTpooled	0.81218	0.71
IL1-4/WTpooled	0.99289	1
WT/WTpooled	1.06117	0.785

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	0.90818	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.12054	1
DC3000/delta hrp 6h	1.00474	0.95
DC3000/delta hrp 12h	1.1174	1
DC3000/delta hrp 24h	2.55854	0.024

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.04854
DC3000 delta B/DC3000 delta AB	1.27909	0.539

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.81682	1
Exp 36h	2.5458	0.693
Exp 60h	1.35881	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9884	1
Var 0h	0.90789	1
Var 12h I row2-row1	1.60373	0.443
Var 12h NI row2-row1	1.51427	0.235
Var 36h I row2-row1	0.96193	1
Var 36h NI row2-row1	0.78374	0.584
Var 60h I row2-row1	0.82164	0.287
Var 60h NI row2-row1	0.92134	1
Time course 0hI-0hNI	1.18112	0.537
Time course 12hI-12hNI	1.92708	0.005
Time course 36hI-36hNI	2.73659	0.005
Time course 60hI-60hNI	5.17396	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)	0.72902	0.18
transgenic ySAMdc/azygous control (breaker)	1.80345	1
transgenic ySAMdc/azygous control (red)	1.17816	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.68629	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.06934	1
Manapal/WT (break)	1.12675	1
Manapal/WT (red)	0.79436	0.607