Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.6.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.45953	0.381
27DAP/17DAP	1.25918	0.864
39DAP/27DAP	0.9386	0.663
41DAP/39DAP	0.87571	0.543
42DAP/41DAP	1.35891	0.792
43DAP/42DAP	1.08997	1
47DAP/43DAP	1.20799	0.349
52DAP/47DAP	1.07306	0.964
57DAP/52DAP	0.81527	0.462

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.916	0.308
17DAP/reference	0.78132	0.015
27DAP/reference	0.87014	0.157
39DAP/reference	0.81395	0.07
41DAP/reference	0.6023	0.009
42DAP/reference	0.85618	0.006
43DAP/reference	0.87864	0.056
47DAP/reference	0.93252	0.207
52DAP/reference	1.10244	0.476
57DAP/reference	1.16018	0.082

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.38941	0.107
27DAP/17DAP	0.70368	0.446
39DAP/27DAP	1.02786	0.984
41DAP/39DAP	0.73076
42DAP/41DAP	1.43483	0.991
43DAP/42DAP	0.6737	0.482
47DAP/43DAP	2.52736	0.744
52DAP/47DAP	0.74071	0.572
57DAP/52DAP	1.95458
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78257	0.129
17DAP/reference	0.67457	0.025
27DAP/reference	0.90882	0.231
39DAP/reference	0.88397	0.083
41DAP/reference	1.00835	0.741
42DAP/reference	0.89201	0.289
43DAP/reference	0.82097	0.079
47DAP/reference	0.98335	0.671
52DAP/reference	1.16901	0.491
57DAP/reference	1.15833	0.308

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02234	0.951
17DAP/reference	0.77294	0.012
27DAP/reference	1.0785	0.974
39DAP/reference	0.94072	0.214
41DAP/reference	1.1951	0.925
42DAP/reference	1.09127	0.655
43DAP/reference	0.69851	0.021
47DAP/reference	0.78409	0.02
52DAP/reference	1.10127	0.208
57DAP/reference	0.92058	0.298

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08212	0.545
17DAP/reference	0.86365	0.224
27DAP/reference	0.9095
39DAP/reference	0.69802	0.04
41DAP/reference	1.15984	0.471
42DAP/reference	1.41452	0.184
43DAP/reference	1.37814	0.291
47DAP/reference	0.84306	0.028
52DAP/reference	0.76581	0.123
57DAP/reference	1.12975	0.56

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9195	1
26DAP/20DAP	0.5082
34DAP/26DAP	1.96226	0.542
51DAP/34DAP	1.37083	0.511
52DAP/51DAP	0.84432	1
53DAP/52DAP	1.04745	0.917
55DAP/53DAP	0.8134	0.5
57DAP/55DAP	0.61224	0.207
62DAP/57DAP	1.21551	0.935
68DAP/62DAP	1.48398
68DAP/14DAP	1.83881	0.031

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	5.43392

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.27074	0.363
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.22031

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.41011
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	N/A	N/A
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	1.11372	0.277
IL2-6/WTpooled	1.58553	0.395
IL7-5/WTpooled	0.91975	1
IL7-3/WTpooled	0.61181	0.31
IL12-4/WTpooled	0.92271	0.71
IL1-4/WTpooled	1.01843	1
WT/WTpooled	0.94262	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97833	1
DC3000/delta hrp 6h	1.23237	0.978
DC3000/delta hrp 12h	0.82396	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	0.78236	1
Exp 36h	1.54523	1
Exp 60h	1.11403	1

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	1.04892	1
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	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.14636	0.863
transgenic ySAMdc/azygous control (breaker)	3.92519	0.248
transgenic ySAMdc/azygous control (red)	1.2177	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.09625	0.063

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.33025	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.91148	1
Manapal/WT (break)	0.61011	0.255
Manapal/WT (red)	1.3423	0.222