Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.18.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.26442	0.365
27DAP/17DAP	0.89382	0.783
39DAP/27DAP	1.6451	0.708
41DAP/39DAP	1.05725	0.88
42DAP/41DAP	1.05971	1
43DAP/42DAP	1.11462	1
47DAP/43DAP	0.99707	0.89
52DAP/47DAP	1.49812	0.451
57DAP/52DAP	0.99841	0.966

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84585	0.08
17DAP/reference	0.91945	0.278
27DAP/reference	0.89657	0.275
39DAP/reference	0.89574	0.17
41DAP/reference	0.8702	0.154
42DAP/reference	0.97648	0.359
43DAP/reference	0.83191	0.071
47DAP/reference	1.09577	0.243
52DAP/reference	1.07186	1
57DAP/reference	1.13041	0.186

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91516	0.526
27DAP/17DAP	0.93961	0.724
39DAP/27DAP	0.9814	0.87
41DAP/39DAP	0.87947	0.662
42DAP/41DAP	0.95349	0.666
43DAP/42DAP	1.04519	0.83
47DAP/43DAP	0.8689	0.656
52DAP/47DAP	0.95956	0.857
57DAP/52DAP	1.12796	0.657
57DAP/7DAP	1.42248	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89828	0.183
17DAP/reference	0.94119	0.295
27DAP/reference	0.79958	0.028
39DAP/reference	0.90567	0.264
41DAP/reference	1.05677	0.949
42DAP/reference	0.7816	0.017
43DAP/reference	0.89955	0.139
47DAP/reference	0.916	0.383
52DAP/reference	1.12504	0.375
57DAP/reference	1.21644	0.438

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76056	0.043
17DAP/reference	0.96858	0.548
27DAP/reference	0.94131	0.366
39DAP/reference	1.03804	1
41DAP/reference	1.01053	0.718
42DAP/reference	1.01933	1
43DAP/reference	0.72363	0.011
47DAP/reference	0.88763	0.102
52DAP/reference	0.93524	0.259
57DAP/reference	0.91997	0.208

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90804	0.034
17DAP/reference	0.97172	0.624
27DAP/reference	0.9874	0.691
39DAP/reference	1.04288	0.711
41DAP/reference	0.91557	0.331
42DAP/reference	1.2463	0.114
43DAP/reference	1.09331	0.474
47DAP/reference	0.91841	0.296
52DAP/reference	1.11678	0.714
57DAP/reference	1.4489	0.031

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.21929	0.362
26DAP/20DAP	1.05576	1
34DAP/26DAP	1.04553	1
51DAP/34DAP	0.99959	0.917
52DAP/51DAP	1.13866	0.606
53DAP/52DAP	0.92359	0.703
55DAP/53DAP	1.08613	0.989
57DAP/55DAP	0.82814	0.282
62DAP/57DAP	0.9274	0.681
68DAP/62DAP	0.88956	0.464
68DAP/14DAP	1.13092

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.78331	0.269

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.2141	0.267
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.16631

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	1.06616
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	1.29848
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	1.0672	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.63818	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.82173
WT/WTpooled	0.92075

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	1.00086	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0385	1
DC3000/delta hrp 6h	0.95786	0.95
DC3000/delta hrp 12h	0.93402	1
DC3000/delta hrp 24h	1.41379	0.84

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	0.44193	0.039

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.90496	1
Exp 36h	1.4271	1
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.07173	1
Var 0h	1.09538	0.421
Var 12h I row2-row1	1.16016	0.443
Var 12h NI row2-row1	1.14429	1
Var 36h I row2-row1	0.95296	0.438
Var 36h NI row2-row1	0.65732	0.61
Var 60h I row2-row1	0.88149	0.832
Var 60h NI row2-row1	1.02238	1
Time course 0hI-0hNI	1.01241	1
Time course 12hI-12hNI	1.33418	0.164
Time course 36hI-36hNI	1.4855	0.19
Time course 60hI-60hNI	1.67769	0.01

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)	0.93625	0.614
transgenic ySAMdc/azygous control (breaker)	0.94496	0.173
transgenic ySAMdc/azygous control (red)	0.88737	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.93962	0.09

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.03986	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.05955	1
Manapal/WT (break)	1.1169	1
Manapal/WT (red)	1.04623	1