Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.19.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22947	0.63
27DAP/17DAP	1.48593	0.613
39DAP/27DAP	0.79804	0.271
41DAP/39DAP	1.47641	0.516
42DAP/41DAP	0.93623	1
43DAP/42DAP	0.99196	0.937
47DAP/43DAP	1.06389	0.502
52DAP/47DAP	1.15134	0.676
57DAP/52DAP	0.93635	0.784

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0127	0.844
17DAP/reference	1.05472	0.369
27DAP/reference	0.99342	0.797
39DAP/reference	0.76679	0.35
41DAP/reference	1.01382	1
42DAP/reference	0.99816	0.608
43DAP/reference	1.00094	0.942
47DAP/reference	1.04063	0.419
52DAP/reference	1.00169	0.768
57DAP/reference	0.86127	0.009

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02623	0.785
27DAP/17DAP	0.9849	0.887
39DAP/27DAP	1.04049	0.615
41DAP/39DAP	1.03434	1
42DAP/41DAP	1.02627	0.984
43DAP/42DAP	0.99195	0.96
47DAP/43DAP	1.0369	0.788
52DAP/47DAP	1.03336	0.862
57DAP/52DAP	0.99348	0.852
57DAP/7DAP	1.16121	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91102	0.168
17DAP/reference	0.96092	0.389
27DAP/reference	0.99835	0.656
39DAP/reference	1.14002	0.314
41DAP/reference	1.14786	0.207
42DAP/reference	0.97519	0.506
43DAP/reference	1.05763	0.637
47DAP/reference	1.04945	1
52DAP/reference	0.8607	0.023
57DAP/reference	1.11298	0.108

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05229	0.206
17DAP/reference	1.06831	0.294
27DAP/reference	1.05902	0.682
39DAP/reference	1.10121	0.239
41DAP/reference	0.87974	0.071
42DAP/reference	0.89662	0.15
43DAP/reference	1.02794	0.939
47DAP/reference	0.88362	0.113
52DAP/reference	1.18762	0.559
57DAP/reference	1.12191	0.072

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85871	0.063
17DAP/reference	0.91188	0.146
27DAP/reference	0.92851	0.319
39DAP/reference	0.90044	0.111
41DAP/reference	0.89729	0.028
42DAP/reference	0.93887	0.445
43DAP/reference	1.02559	0.91
47DAP/reference	0.99126	0.61
52DAP/reference	0.8968	0.327
57DAP/reference	0.81286	0.082

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96572	1
26DAP/20DAP	0.92288	0.512
34DAP/26DAP	1.02758	1
51DAP/34DAP	0.92523	0.513
52DAP/51DAP	1.10069	0.481
53DAP/52DAP	1.16047	0.662
55DAP/53DAP	0.9507	0.293
57DAP/55DAP	0.88322	0.427
62DAP/57DAP	1.1738	0.257
68DAP/62DAP	0.91877	0.7
68DAP/14DAP	1.27451	0.113

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91651	0.285

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.64064	0.159
Mature Green Tomato/Ripe Tomato	0.81293	0.04
Immature Eggplant/Mature Eggplant	0.96141	0.545
Ripe Pepper/Ripe Tomato	1.1071	1
Mature Eggplant/Ripe Tomato	0.51149	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.59367	0.742
1-1-2/M82	1.04228	1
12-2/M82	0.85146	0.955
12-4/M82	0.86853	1
1-3/M82	1.64466	0.277
2-1-1/M82	1.19002	0.375
2-1/M82	0.79852	0.74
2-6/M82	1.41119	0.594
3-2/M82	1.91394
4-1-1/M82	1.3658	1
4-1/M82	0.79169	0.737
4-3-2/M82	0.90384	0.487
4-3/M82	1.5017	1
5-3/M82	0.87046	0.49
6-2/M82	1.61697	1
6-3/M82	1.13614	1
7-1/M82	N/A	N/A
7-2/M82	1.36919	0.385
9-3-2/M82	1.02797	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.35473	0.365
IL2-6/WTpooled	1.0794	0.659
IL7-5/WTpooled	1.17286
IL7-3/WTpooled	1.36721	0.362
IL12-4/WTpooled	1.57167	0.538
IL1-4/WTpooled	0.89337	0.834
WT/WTpooled	0.88865	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	0.82768	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91592	1
DC3000/delta hrp 6h	1.04149	1
DC3000/delta hrp 12h	0.88174	1
DC3000/delta hrp 24h	0.52311	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.9795	1
DC3000 delta B/DC3000 delta AB	1.0422	0.55

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.61534	0.328
Exp 36h	0.75847	0.406
Exp 60h	0.80988	0.249

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98785	1
Var 0h	1.01522	1
Var 12h I row2-row1	1.13553	0.204
Var 12h NI row2-row1	1.44341	1
Var 36h I row2-row1	0.93257	1
Var 36h NI row2-row1	0.91742	0.61
Var 60h I row2-row1	1.31909	0.562
Var 60h NI row2-row1	1.16999	0.904
Time course 0hI-0hNI	1.09167	0.719
Time course 12hI-12hNI	1.04494	0.81
Time course 36hI-36hNI	0.96501	0.337
Time course 60hI-60hNI	1.18412	0.047

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)	0.93427	0.485
transgenic ySAMdc/azygous control (breaker)	1.55147	0.172
transgenic ySAMdc/azygous control (red)	1.62898	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98863	0.065

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.41179	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.90262	0.088
Manapal/WT (break)	1.032	1
Manapal/WT (red)	2.00069	0.142