Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.14.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.21529	0.739
27DAP/17DAP	0.49874	0.036
39DAP/27DAP	0.81039	0.487
41DAP/39DAP	0.70565	0.185
42DAP/41DAP	0.92349	1
43DAP/42DAP	1.07409	1
47DAP/43DAP	0.72923	0.25
52DAP/47DAP	0.6682	0.184
57DAP/52DAP	0.82933	0.86

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31115	0.038
17DAP/reference	1.32726	0.021
27DAP/reference	1.01205	0.923
39DAP/reference	1.18915	0.075
41DAP/reference	1.34651	0.025
42DAP/reference	1.22118	0.001
43DAP/reference	1.04907	0.547
47DAP/reference	1.03348	0.885
52DAP/reference	1.0227	1
57DAP/reference	0.8568	0.054

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.82136	0.036
27DAP/17DAP	0.73585	0.195
39DAP/27DAP	0.31426	0.028
41DAP/39DAP	1.50882	0.044
42DAP/41DAP	0.79958	0.047
43DAP/42DAP	0.58597	0.023
47DAP/43DAP	1.00524	0.998
52DAP/47DAP	0.89644	0.655
57DAP/52DAP	1.48721	0.984
57DAP/7DAP	0.44088	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28005	0.054
17DAP/reference	0.83361	0.016
27DAP/reference	0.53742	0.01
39DAP/reference	0.53498	0.011
41DAP/reference	0.52005	0.014
42DAP/reference	0.44945	0.01
43DAP/reference	0.40447	0.009
47DAP/reference	0.65774	0.128
52DAP/reference	0.49292	0.011
57DAP/reference	0.44439	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24127	0.12
17DAP/reference	1.51148	0.009
27DAP/reference	1.28848	0.022
39DAP/reference	1.2359	0.109
41DAP/reference	1.18964	0.096
42DAP/reference	1.17179	0.19
43DAP/reference	1.03089	0.438
47DAP/reference	1.13013	0.054
52DAP/reference	1.20173	0.012
57DAP/reference	1.41681	0.019

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.9279	0.018
17DAP/reference	1.71567	0.1
27DAP/reference	1.12382	0.284
39DAP/reference	1.01754	1
41DAP/reference	0.76768	0.086
42DAP/reference	0.69923	0.071
43DAP/reference	0.77365	0.12
47DAP/reference	0.92879	0.269
52DAP/reference	0.75414	0.204
57DAP/reference	0.86233	0.063

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11598	0.966
26DAP/20DAP	0.91494	1
34DAP/26DAP	0.85046	0.132
51DAP/34DAP	0.42099	0.049
52DAP/51DAP	0.97792	1
53DAP/52DAP	0.68209	0.06
55DAP/53DAP	0.70893	0.077
57DAP/55DAP	1.07109	0.986
62DAP/57DAP	1.12364	0.935
68DAP/62DAP	0.82794	0.464
68DAP/14DAP	0.6549	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.59243	0.024

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.19112	0.089
Mature Green Tomato/Ripe Tomato	4.60558	0.022
Immature Eggplant/Mature Eggplant	0.86377	0.197
Ripe Pepper/Ripe Tomato	0.73096	0.224
Mature Eggplant/Ripe Tomato	0.77064

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	0.97632
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.52125
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	0.99229
7-2/M82	N/A	N/A
9-3-2/M82	1.32338	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.56683	0.277
IL2-6/WTpooled	1.14366	0.788
IL7-5/WTpooled	1.11428	1
IL7-3/WTpooled	1.12331	1
IL12-4/WTpooled	1.04534	0.891
IL1-4/WTpooled	1.08831	1
WT/WTpooled	0.98345	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	0.98049	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98474	1
DC3000/delta hrp 6h	0.86158	0.95
DC3000/delta hrp 12h	1.16995	1
DC3000/delta hrp 24h	0.66823	0.034

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	0.52374	0.028

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02768	1
Exp 36h	0.82724	0.41
Exp 60h	0.94546	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97315	1
Var 0h	1.27385	0.98
Var 12h I row2-row1	1.1076	0.443
Var 12h NI row2-row1	1.006	1
Var 36h I row2-row1	0.82749	1
Var 36h NI row2-row1	0.99306	0.852
Var 60h I row2-row1	1.21216	0.562
Var 60h NI row2-row1	0.99895	1
Time course 0hI-0hNI	1.00449	1
Time course 12hI-12hNI	1.0275	0.818
Time course 36hI-36hNI	1.05994	0.316
Time course 60hI-60hNI	1.33462	0.033

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)	1.04746	0.431
transgenic ySAMdc/azygous control (breaker)	0.88214	0.49
transgenic ySAMdc/azygous control (red)	0.94854	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.87863	0.049

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.68823	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.65775	0.083
Manapal/WT (break)	1.2615	0.183
Manapal/WT (red)	0.93046	0.187