Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.18.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91947	0.558
27DAP/17DAP	0.66943	0.061
39DAP/27DAP	1.05216	1
41DAP/39DAP	1.04831	0.92
42DAP/41DAP	1.32829	0.477
43DAP/42DAP	1.25149	0.629
47DAP/43DAP	1.65923	0.213
52DAP/47DAP	0.71646	0.335
57DAP/52DAP	1.21613	0.952

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.37653	0.089
17DAP/reference	0.87631	0.104
27DAP/reference	1.07205	0.405
39DAP/reference	0.9126	0.149
41DAP/reference	0.95802	0.542
42DAP/reference	0.92544	0.095
43DAP/reference	0.89031	0.107
47DAP/reference	0.90911	0.127
52DAP/reference	0.98181	0.515
57DAP/reference	0.99161	0.671

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.62553	0.053
27DAP/17DAP	1.67859	0.024
39DAP/27DAP	0.68099	0.062
41DAP/39DAP	0.82401	0.08
42DAP/41DAP	1.20325	0.508
43DAP/42DAP	1.04684	0.746
47DAP/43DAP	0.91556	0.506
52DAP/47DAP	1.45052	0.186
57DAP/52DAP	1.14624	0.871
57DAP/7DAP	0.8829	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01269	1
17DAP/reference	1.03164	0.971
27DAP/reference	1.04241	0.246
39DAP/reference	1.36602	0.01
41DAP/reference	1.29664	0.014
42DAP/reference	1.23165	0.233
43DAP/reference	0.96164	0.421
47DAP/reference	1.14813	0.331
52DAP/reference	1.11615	0.121
57DAP/reference	1.00792	0.831

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10696	0.626
17DAP/reference	1.1738	0.092
27DAP/reference	1.06072	0.933
39DAP/reference	1.21088	0.588
41DAP/reference	1.27555	0.133
42DAP/reference	1.06793	0.915
43DAP/reference	0.88105	0.229
47DAP/reference	0.91464	0.141
52DAP/reference	0.93354	0.239
57DAP/reference	0.82295	0.05

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08755	0.338
17DAP/reference	1.04947	1
27DAP/reference	0.98387	0.624
39DAP/reference	1.03816	0.935
41DAP/reference	1.19214	0.045
42DAP/reference	1.19147	0.272
43DAP/reference	1.35709	0.041
47DAP/reference	0.95747	0.434
52DAP/reference	0.99581	0.838
57DAP/reference	1.5103	0.022

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.19096	0.966
26DAP/20DAP	1.18831	0.587
34DAP/26DAP	1.1069	1
51DAP/34DAP	1.32178
52DAP/51DAP	1.05742	1
53DAP/52DAP	1.00291	0.97
55DAP/53DAP	0.93224	0.796
57DAP/55DAP	1.41657	0.841
62DAP/57DAP	1.02697	0.994
68DAP/62DAP	1.65898	0.042
68DAP/14DAP	1.57585	0.091

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.8889	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.25406	0.058
Mature Green Tomato/Ripe Tomato	1.08753	1
Immature Eggplant/Mature Eggplant	0.24761
Ripe Pepper/Ripe Tomato	2.31212	0.256
Mature Eggplant/Ripe Tomato	0.27623	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.04789
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	2.02807
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.19464	0.284
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.89808
7-2/M82	N/A	N/A
9-3-2/M82	1.10465	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.18908
IL2-6/WTpooled	0.88604	1
IL7-5/WTpooled	1.21486	0.792
IL7-3/WTpooled	1.14135	0.362
IL12-4/WTpooled	1.13796	0.595
IL1-4/WTpooled	1.05876	1
WT/WTpooled	0.83245	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	0.92938	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	1.16069	1
DC3000/delta hrp 12h	0.85321	1
DC3000/delta hrp 24h	0.49768	0.163

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.14143	0.087
DC3000 delta B/DC3000 delta AB	0.88904	0.261

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.94823	1
Exp 36h	0.62497	0.434
Exp 60h	0.65417	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01293	1
Var 0h	1.13207	0.936
Var 12h I row2-row1	0.77552	0.418
Var 12h NI row2-row1	0.74078	0.384
Var 36h I row2-row1	1.05942	1
Var 36h NI row2-row1	1.05101	1
Var 60h I row2-row1	0.96316	0.293
Var 60h NI row2-row1	1.02559	1
Time course 0hI-0hNI	1.01841	1
Time course 12hI-12hNI	0.90693	0.298
Time course 36hI-36hNI	0.84644	0.038
Time course 60hI-60hNI	0.16144	0.005

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)	0.95258	0.662
transgenic ySAMdc/azygous control (breaker)	1.06726	1
transgenic ySAMdc/azygous control (red)	1.22665	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.84498	0.112

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.3883	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.68994	0.084
Manapal/WT (break)	1.2026	1
Manapal/WT (red)	1.35218	0.413