Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-2.1.4.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95251	0.699
27DAP/17DAP	0.9663	0.973
39DAP/27DAP	0.76021	0.487
41DAP/39DAP	1.70429	0.603
42DAP/41DAP	0.78852	0.774
43DAP/42DAP	0.89747	0.783
47DAP/43DAP	0.9848	0.904
52DAP/47DAP	0.91458	0.602
57DAP/52DAP	1.16225	0.95

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02378	1
17DAP/reference	1.01296	0.764
27DAP/reference	0.99817	0.885
39DAP/reference	0.90534	0.093
41DAP/reference	0.87278	0.049
42DAP/reference	0.87364	0.01
43DAP/reference	0.96548	0.611
47DAP/reference	0.8794	0.06
52DAP/reference	0.94193	0.341
57DAP/reference	0.85079	0.02

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93522	0.526
27DAP/17DAP	1.04903	0.905
39DAP/27DAP	1.04788	0.77
41DAP/39DAP	0.99388	1
42DAP/41DAP	1.00631	0.712
43DAP/42DAP	0.77048	0.132
47DAP/43DAP	0.94996	0.815
52DAP/47DAP	1.10941	0.696
57DAP/52DAP	0.83488	0.213
57DAP/7DAP	0.92569	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89242	0.224
17DAP/reference	1.02077	1
27DAP/reference	0.99072	0.614
39DAP/reference	1.03097	0.819
41DAP/reference	0.8615	0.111
42DAP/reference	0.72875	0.01
43DAP/reference	0.81882	0.027
47DAP/reference	0.85838	0.168
52DAP/reference	0.88136	0.09
57DAP/reference	0.84331	0.071

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03212	0.894
17DAP/reference	0.93098	0.461
27DAP/reference	1.1232	0.419
39DAP/reference	0.79009	0.306
41DAP/reference	1.04962	1
42DAP/reference	0.94502	0.355
43DAP/reference	1.14576	0.288
47DAP/reference	0.93583	0.368
52DAP/reference	1.12838	0.223
57DAP/reference	0.9759	0.649

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01559	1
17DAP/reference	1.172	0.215
27DAP/reference	1.26298	0.081
39DAP/reference	0.94701	0.36
41DAP/reference	1.11226	0.754
42DAP/reference	0.96233	0.552
43DAP/reference	0.9384	0.305
47DAP/reference	0.98694	0.61
52DAP/reference	0.86749	0.242
57DAP/reference	0.74	0.027

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06947	0.966
26DAP/20DAP	1.26616	0.404
34DAP/26DAP	0.75318	0.185
51DAP/34DAP	1.00519	0.98
52DAP/51DAP	0.88302	1
53DAP/52DAP	0.71863	0.078
55DAP/53DAP	0.86711	0.336
57DAP/55DAP	0.9657	0.888
62DAP/57DAP	0.66088	0.002
68DAP/62DAP	0.82809	0.052
68DAP/14DAP	1.19498	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.53987	0.023

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.45875	0.113
Mature Green Tomato/Ripe Tomato	2.52047	0.149
Immature Eggplant/Mature Eggplant	0.1947	0.057
Ripe Pepper/Ripe Tomato	12.3157	N/A
Mature Eggplant/Ripe Tomato	148.198	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.17084	0.742
1-1-2/M82	0.88041	N/A
12-2/M82	N/A	N/A
12-4/M82	1.28605	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	0.97009	0.501
3-2/M82	0.99493	N/A
4-1-1/M82	0.79408	N/A
4-1/M82	1.00612	N/A
4-3-2/M82	0.85357	N/A
4-3/M82	0.97163	N/A
5-3/M82	0.97816	1
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	1.01918	1
IL2-6/WTpooled	1.08078	0.659
IL7-5/WTpooled	1.22842	0.792
IL7-3/WTpooled	1.03158	1
IL12-4/WTpooled	0.92719	0.71
IL1-4/WTpooled	1.03107	1
WT/WTpooled	0.88299	1

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	0.89519	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99185	1
DC3000/delta hrp 6h	1.17224	1
DC3000/delta hrp 12h	1.06479	1
DC3000/delta hrp 24h	0.99087	1

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	1.18262	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
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	1.03893	1
Var 0h	0.86499	0.933
Var 12h I row2-row1	0.95867	0.948
Var 12h NI row2-row1	1.28335	1
Var 36h I row2-row1	1.10668	0.742
Var 36h NI row2-row1	1.23412	0.276
Var 60h I row2-row1	0.90411	0.952
Var 60h NI row2-row1	0.82967	0.38
Time course 0hI-0hNI	0.86084	0.132
Time course 12hI-12hNI	1.08059	0.554
Time course 36hI-36hNI	1.33258	0.248
Time course 60hI-60hNI	2.44027	0.053

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)	0.65598	0.289
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	1.30912	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9886	0.5

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.41491	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.88583	0.728