Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.8.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.3328	0.183
27DAP/17DAP	1.25587	0.766
39DAP/27DAP	0.87927	0.583
41DAP/39DAP	1.07714	0.715
42DAP/41DAP	0.86229	1
43DAP/42DAP	2.10581	0.038
47DAP/43DAP	0.61629	0.074
52DAP/47DAP	1.08423	0.993
57DAP/52DAP	0.99495	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86352	0.159
17DAP/reference	0.99521	0.858
27DAP/reference	0.94072	0.471
39DAP/reference	1.01867	1
41DAP/reference	0.94714	0.341
42DAP/reference	0.86549	0.035
43DAP/reference	0.99042	0.805
47DAP/reference	0.96629	0.366
52DAP/reference	0.86625	0.071
57DAP/reference	1.10035	0.141

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15524	0.164
27DAP/17DAP	1.16048	0.271
39DAP/27DAP	1.0376	0.685
41DAP/39DAP	0.953	0.764
42DAP/41DAP	0.85632	0.197
43DAP/42DAP	1.18748	0.028
47DAP/43DAP	1.03827	0.765
52DAP/47DAP	1.22198	0.382
57DAP/52DAP	1.1761	0.318
57DAP/7DAP	1.39453	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29845	0.047
17DAP/reference	1.09369	0.028
27DAP/reference	1.03483	0.804
39DAP/reference	1.28564	0.018
41DAP/reference	1.07175	0.637
42DAP/reference	1.07479	0.405
43DAP/reference	0.9269	0.183
47DAP/reference	0.92613	0.383
52DAP/reference	1.074	0.832
57DAP/reference	1.08327	0.232

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01378	0.993
17DAP/reference	0.93461	0.337
27DAP/reference	0.83943	0.108
39DAP/reference	1.10904	0.389
41DAP/reference	0.97373	0.451
42DAP/reference	0.94048	0.355
43DAP/reference	1.00074	0.736
47DAP/reference	0.91656	0.071
52DAP/reference	1.06865	0.559
57DAP/reference	0.9654	0.581

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06921	0.23
17DAP/reference	0.81924	0.143
27DAP/reference	0.98066	0.539
39DAP/reference	0.9912	0.693
41DAP/reference	0.96209	0.459
42DAP/reference	0.86237	0.134
43DAP/reference	0.7803	0.106
47DAP/reference	0.99683	0.646
52DAP/reference	1.11089	0.566
57DAP/reference	1.24628	0.452

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.90179	0.915
26DAP/20DAP	0.92169	0.512
34DAP/26DAP	0.93614	0.548
51DAP/34DAP	1.02164	0.924
52DAP/51DAP	1.01549	1
53DAP/52DAP	1.00037	0.99
55DAP/53DAP	0.96657	0.796
57DAP/55DAP	0.82871	0.291
62DAP/57DAP	1.10392	1
68DAP/62DAP	1.25057	0.323
68DAP/14DAP	0.61248

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.72764	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.20692	0.073
Mature Green Tomato/Ripe Tomato	0.56641	0.02
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	7.37237	0.258
Mature Eggplant/Ripe Tomato	1.43843

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.90704
12-2/M82	N/A	N/A
12-4/M82	1.03895	1
1-3/M82	N/A	N/A
2-1-1/M82	0.64542
2-1/M82	N/A	N/A
2-6/M82	1.20745
3-2/M82	1.3133
4-1-1/M82	N/A	N/A
4-1/M82	0.96105
4-3-2/M82	0.82392
4-3/M82	N/A	N/A
5-3/M82	1.03892	0.496
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.7993
7-2/M82	0.8788
9-3-2/M82	0.76777

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.69697
WT/WTpooled	N/A	N/A

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	0.91929	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.18855	0.692
DC3000/delta hrp 6h	0.98499	0.95
DC3000/delta hrp 12h	1.09267	1
DC3000/delta hrp 24h	0.79389	0.163

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.74063	0.436
DC3000 delta B/DC3000 delta AB	0.71254	0.026

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	3.59965	0.693
Exp 60h	1.72222	0.215

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01934	1
Var 0h	1.0486	0.98
Var 12h I row2-row1	0.96022	0.856
Var 12h NI row2-row1	1.05058	1
Var 36h I row2-row1	1.01868	0.908
Var 36h NI row2-row1	0.93563	0.478
Var 60h I row2-row1	1.02372	0.562
Var 60h NI row2-row1	1.24854	0.904
Time course 0hI-0hNI	1.05743	0.63
Time course 12hI-12hNI	0.98074	0.841
Time course 36hI-36hNI	0.99288	0.693
Time course 60hI-60hNI	0.96227	0.646

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)	1.38959	0.612
transgenic ySAMdc/azygous control (breaker)	0.94085	0.49
transgenic ySAMdc/azygous control (red)	1.16083	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00051	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.37041	0.088
Manapal/WT (break)	1.35519	0.381
Manapal/WT (red)	0.91645	0.503