Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.1.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96732	0.76
27DAP/17DAP	0.823	0.539
39DAP/27DAP	0.80426	0.462
41DAP/39DAP	0.72421	0.165
42DAP/41DAP	1.32335	0.642
43DAP/42DAP	0.9775	0.925
47DAP/43DAP	1.02742	0.733
52DAP/47DAP	0.75257	0.405
57DAP/52DAP	1.02167	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85619	0.101
17DAP/reference	1.01153	0.904
27DAP/reference	1.11272	0.299
39DAP/reference	0.86751	0.093
41DAP/reference	0.76013	0.01
42DAP/reference	0.99106	0.484
43DAP/reference	1.05472	0.403
47DAP/reference	1.12848	0.062
52DAP/reference	1.09547	0.576
57DAP/reference	1.13535	0.088

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.98307	0.179
27DAP/17DAP	0.95174	0.614
39DAP/27DAP	1.04748	0.677
41DAP/39DAP	1.17115	0.853
42DAP/41DAP	1.40857	0.582
43DAP/42DAP	1.32381	0.212
47DAP/43DAP	0.89367	0.418
52DAP/47DAP	0.95599	0.848
57DAP/52DAP	1.44667	0.121
57DAP/7DAP	1.21371	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86851	0.073
17DAP/reference	0.88834	0.072
27DAP/reference	0.97942	0.494
39DAP/reference	0.8824	0.095
41DAP/reference	0.976	0.489
42DAP/reference	1.05302	0.828
43DAP/reference	0.9363	0.334
47DAP/reference	0.96894	0.504
52DAP/reference	0.884	0.126
57DAP/reference	0.78787	0.021

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74702	0.023
17DAP/reference	0.86669	0.164
27DAP/reference	0.91478	0.115
39DAP/reference	0.85843	0.04
41DAP/reference	1.14512	0.078
42DAP/reference	0.85682	0.121
43DAP/reference	0.85051	0.181
47DAP/reference	0.86226	0.046
52DAP/reference	0.86693	0.016
57DAP/reference	0.73518	0.018

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97969	0.566
17DAP/reference	0.91573	0.328
27DAP/reference	1.02314	0.805
39DAP/reference	0.81649	0.035
41DAP/reference	0.93012	0.331
42DAP/reference	1.10141	0.459
43DAP/reference	1.07823	0.465
47DAP/reference	1.30299	0.127
52DAP/reference	0.91696	0.368
57DAP/reference	1.73172	0.03

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03438	1
26DAP/20DAP	1.17301	0.806
34DAP/26DAP	1.02903	1
51DAP/34DAP	1.35647	0.281
52DAP/51DAP	1.03712	0.776
53DAP/52DAP	1.09204	0.688
55DAP/53DAP	0.94956	0.746
57DAP/55DAP	0.66068	0.097
62DAP/57DAP	2.85233	0.569
68DAP/62DAP	2.07619	0.009
68DAP/14DAP	1.60171	0.047

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.89284	0.358

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.96942	0.726
Mature Green Tomato/Ripe Tomato	0.89085	0.522
Immature Eggplant/Mature Eggplant	0.34209	0.057
Ripe Pepper/Ripe Tomato	2.1092	0.256
Mature Eggplant/Ripe Tomato	1.18104	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.78136
1-1-2/M82	1.10346	1
12-2/M82	0.97129	0.692
12-4/M82	0.5907	0.257
1-3/M82	1.42686	0.277
2-1-1/M82	0.52161
2-1/M82	0.72116	0.345
2-6/M82	1.37719	0.385
3-2/M82	1.36094
4-1-1/M82	0.98364	1
4-1/M82	0.62235
4-3-2/M82	1.71398
4-3/M82	1.26659	1
5-3/M82	0.96155	1
6-2/M82	0.80873	0.481
6-3/M82	0.97628	1
7-1/M82	0.79419	0.803
7-2/M82	1.08	0.385
9-3-2/M82	1.37717	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.9511	1
IL2-6/WTpooled	1.03095	1
IL7-5/WTpooled	0.86542	1
IL7-3/WTpooled	0.78721	0.31
IL12-4/WTpooled	0.98132	1
IL1-4/WTpooled	0.93782	0.699
WT/WTpooled	1.16462	0.874

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	0.85742	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94106	1
DC3000/delta hrp 6h	1.15126	1
DC3000/delta hrp 12h	1.00755	1
DC3000/delta hrp 24h	0.90551	0.274

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.92106
DC3000 delta B/DC3000 delta AB	0.49088

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.26131	1
Exp 36h	0.7903	0.661
Exp 60h	0.79559	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00474	1
Var 0h	0.95644	1
Var 12h I row2-row1	0.64925	0.353
Var 12h NI row2-row1	0.98255	1
Var 36h I row2-row1	0.62519	1
Var 36h NI row2-row1	1.02369	1
Var 60h I row2-row1	0.99979
Var 60h NI row2-row1	1.03803	0.904
Time course 0hI-0hNI	0.91273	0.196
Time course 12hI-12hNI	1.04793	0.58
Time course 36hI-36hNI	0.84866	0.025
Time course 60hI-60hNI	0.22062	0.006

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)	1.01705	0.798
transgenic ySAMdc/azygous control (breaker)	1.42968	0.178
transgenic ySAMdc/azygous control (red)	1.41859	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.1356	0.194

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.8916	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.90739	0.083
Manapal/WT (break)	2.19798	0.14
Manapal/WT (red)	1.88634	0.133