Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.3.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91428	0.596
27DAP/17DAP	0.76962	0.522
39DAP/27DAP	1.65843	0.507
41DAP/39DAP	0.85902	0.51
42DAP/41DAP	0.98892	1
43DAP/42DAP	1.05563	0.94
47DAP/43DAP	0.80222	0.407
52DAP/47DAP	0.72316	0.483
57DAP/52DAP	1.29161	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25191	0.132
17DAP/reference	1.12365	0.696
27DAP/reference	1.36415	0.017
39DAP/reference	1.57671	0.035
41DAP/reference	1.65133	0.009
42DAP/reference	0.8305	0.295
43DAP/reference	N/A	N/A
47DAP/reference	1.32149	0.119
52DAP/reference	0.91085	0.172
57DAP/reference	0.64779	0.031

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92746	0.716
27DAP/17DAP	1.1738
39DAP/27DAP	N/A	N/A
41DAP/39DAP	N/A	N/A
42DAP/41DAP	0.7838	0.228
43DAP/42DAP	1.86013	0.513
47DAP/43DAP	0.90081	0.909
52DAP/47DAP	1.15835	0.851
57DAP/52DAP	N/A	N/A
57DAP/7DAP	1.30621	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	N/A	N/A
17DAP/reference	N/A	N/A
27DAP/reference	0.07736
39DAP/reference	0.18134
41DAP/reference	N/A	N/A
42DAP/reference	N/A	N/A
43DAP/reference	N/A	N/A
47DAP/reference	1.68436
52DAP/reference	N/A	N/A
57DAP/reference	N/A	N/A

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.27609	0.284
17DAP/reference	1.60439	0.007
27DAP/reference	1.19613	0.133
39DAP/reference	1.24215	0.449
41DAP/reference	1.12391	0.666
42DAP/reference	1.20737	0.519
43DAP/reference	1.37018	0.247
47DAP/reference	1.49293	0.164
52DAP/reference	N/A	N/A
57DAP/reference	1.02459	0.887

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.22946
17DAP/reference	N/A	N/A
27DAP/reference	15.5506
39DAP/reference	N/A	N/A
41DAP/reference	0.57276
42DAP/reference	1.05412
43DAP/reference	1.15497	0.418
47DAP/reference	0.52035
52DAP/reference	N/A	N/A
57DAP/reference	1.06132	0.717

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.41517	0.021
26DAP/20DAP	4.38306	0.297
34DAP/26DAP	0.69928	0.092
51DAP/34DAP	1.06811	0.883
52DAP/51DAP	N/A	N/A
53DAP/52DAP	0.71819	0.065
55DAP/53DAP	0.96031	0.735
57DAP/55DAP	0.72671
62DAP/57DAP	3.85736
68DAP/62DAP	0.73695
68DAP/14DAP	0.9537

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.20526

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	N/A	N/A
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	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	1.13596	0.277
IL2-6/WTpooled	0.90919	1
IL7-5/WTpooled	1.07948	0.792
IL7-3/WTpooled	1.34382	1
IL12-4/WTpooled	1.33539	0.538
IL1-4/WTpooled	0.98179	1
WT/WTpooled	1.01593	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	N/A	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
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	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	0.94774
Var 0h	1.08542	0.98
Var 12h I row2-row1	0.77221	0.39
Var 12h NI row2-row1	2.3663	1
Var 36h I row2-row1	1.06975	1
Var 36h NI row2-row1	1.14754	1
Var 60h I row2-row1	0.93846	0.582
Var 60h NI row2-row1	0.96905	1
Time course 0hI-0hNI	0.93439	0.516
Time course 12hI-12hNI	0.99545	1
Time course 36hI-36hNI	0.99549	0.73
Time course 60hI-60hNI	0.61679	0.007

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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)	1.33228	1
Manapal/WT (red)	N/A	N/A