Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.20.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83002	0.522
27DAP/17DAP	1.13515	1
39DAP/27DAP	0.6739	0.425
41DAP/39DAP	1.60228	0.742
42DAP/41DAP	0.71226	0.774
43DAP/42DAP	1.38094	0.848
47DAP/43DAP	1.36198	0.776
52DAP/47DAP	1.6044	0.78
57DAP/52DAP	0.91483	0.899

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8385	0.077
17DAP/reference	0.81866	0.008
27DAP/reference	0.78026	0.02
39DAP/reference	0.85094	0.027
41DAP/reference	0.84295	0.085
42DAP/reference	0.82689	0.007
43DAP/reference	0.87882	0.088
47DAP/reference	0.8512	0.032
52DAP/reference	0.99468	0.654
57DAP/reference	1.17072	0.045

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.42334	0.037
27DAP/17DAP	0.82249	0.724
39DAP/27DAP	0.94515	0.859
41DAP/39DAP	1.37783	0.276
42DAP/41DAP	0.66635	0.099
43DAP/42DAP	1.42581	0.788
47DAP/43DAP	0.96926	0.855
52DAP/47DAP	1.13305	0.933
57DAP/52DAP	1.20652	0.657
57DAP/7DAP	0.79281

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86962	0.066
17DAP/reference	0.89774	0.167
27DAP/reference	1.05822	0.453
39DAP/reference	0.84862	0.109
41DAP/reference	0.9874	0.619
42DAP/reference	0.98189	0.582
43DAP/reference	0.82181	0.11
47DAP/reference	1.03102	1
52DAP/reference	0.96535	0.477
57DAP/reference	0.87607	0.123

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77199	0.076
17DAP/reference	0.64944	0.009
27DAP/reference	0.77561	0.017
39DAP/reference	0.83051	0.015
41DAP/reference	0.94598	0.315
42DAP/reference	0.92348	0.189
43DAP/reference	0.74916	0.033
47DAP/reference	0.78866	0.01
52DAP/reference	0.90887	0.121
57DAP/reference	0.72464	0.017

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88279	0.127
17DAP/reference	0.91307	0.407
27DAP/reference	0.8771	0.056
39DAP/reference	0.87281	0.022
41DAP/reference	0.99049	0.682
42DAP/reference	0.99475	0.816
43DAP/reference	0.90865	0.319
47DAP/reference	0.92007	0.191
52DAP/reference	1.50671	0.436
57DAP/reference	1.11947	0.371

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.82891	0.841
26DAP/20DAP	1.46939	0.504
34DAP/26DAP	1.50438	0.819
51DAP/34DAP	0.92974	0.703
52DAP/51DAP	1.58002	0.651
53DAP/52DAP	1.46725	0.753
55DAP/53DAP	0.99633	0.886
57DAP/55DAP	0.7029	0.181
62DAP/57DAP	1.23684	0.767
68DAP/62DAP	2.34377	0.026
68DAP/14DAP	2.70735	0.022

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.21787	0.087

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.08789
Mature Eggplant/Ripe Tomato	N/A	N/A

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	1.2258
6-2/M82	N/A	N/A
6-3/M82	1.67297
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	1.18926
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.51585
IL7-3/WTpooled	0.87882
IL12-4/WTpooled	1.32129	0.516
IL1-4/WTpooled	0.88173
WT/WTpooled	1.02701

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	1.01354

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95652	1
DC3000/delta hrp 6h	1.07629	1
DC3000/delta hrp 12h	0.99838	1
DC3000/delta hrp 24h	N/A	N/A

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	1.14202	1
Exp 36h	1.87101	0.693
Exp 60h	0.99116	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	1.03743
Time course 0hI-0hNI	1.06172
Time course 12hI-12hNI	1.08498	0.639
Time course 36hI-36hNI	0.91908	0.504
Time course 60hI-60hNI	1.85675	0.187

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)	0.95586	0.377
transgenic ySAMdc/azygous control (breaker)	1.09799	0.248
transgenic ySAMdc/azygous control (red)	0.92226	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03808	0.317

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.95774	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.78614	1
Manapal/WT (break)	1.03205	1
Manapal/WT (red)	1.05292	1