Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.1.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04014	0.77
27DAP/17DAP	1.14231	0.825
39DAP/27DAP	1.15341	0.681
41DAP/39DAP	1.1405	0.416
42DAP/41DAP	1.0518	0.971
43DAP/42DAP	1.10877	1
47DAP/43DAP	1.07858	0.842
52DAP/47DAP	1.08818	0.906
57DAP/52DAP	1.04639	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10508	0.71
17DAP/reference	1.04658	0.585
27DAP/reference	1.10401	0.58
39DAP/reference	1.34444	0.068
41DAP/reference	1.18492	0.365
42DAP/reference	1.3014	0.022
43DAP/reference	1.18636	0.074
47DAP/reference	1.32215	0.003
52DAP/reference	1.00599	0.654
57DAP/reference	1.01189	0.805

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.24752	0.135
27DAP/17DAP	0.88197	0.58
39DAP/27DAP	1.05459	0.685
41DAP/39DAP	0.92422	0.793
42DAP/41DAP	1.05915	0.753
43DAP/42DAP	1.09536	0.585
47DAP/43DAP	1.00505	0.99
52DAP/47DAP	1.02877	0.939
57DAP/52DAP	1.11497	0.5
57DAP/7DAP	0.93636	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00828	0.758
17DAP/reference	0.76668	0.012
27DAP/reference	0.82152	0.101
39DAP/reference	0.74528	0.021
41DAP/reference	0.74411	0.023
42DAP/reference	0.6934	0.011
43DAP/reference	0.7881	0.011
47DAP/reference	1.11304	0.822
52DAP/reference	0.78092	0.083
57DAP/reference	0.78333	0.057

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12548	0.704
17DAP/reference	1.5362	0.008
27DAP/reference	1.16957	0.109
39DAP/reference	1.15998	0.412
41DAP/reference	1.117	0.335
42DAP/reference	1.18233	0.254
43DAP/reference	1.20603	0.15
47DAP/reference	1.34089	0.035
52DAP/reference	1.07276	0.789
57DAP/reference	1.20265	0.221

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03872	0.75
17DAP/reference	1.11687	0.775
27DAP/reference	0.86646	0.113
39DAP/reference	1.11188	0.987
41DAP/reference	0.95755	0.512
42DAP/reference	1.01535	0.816
43DAP/reference	1.05298	0.815
47DAP/reference	1.1892	0.324
52DAP/reference	0.90976	0.472
57DAP/reference	1.23032	0.401

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.78667	0.355
26DAP/20DAP	0.95698	1
34DAP/26DAP	1.04692	1
51DAP/34DAP	0.81924	0.176
52DAP/51DAP	0.92103	1
53DAP/52DAP	1.21002	0.868
55DAP/53DAP	1.11472	0.782
57DAP/55DAP	1.27345	0.492
62DAP/57DAP	0.46358	0.681
68DAP/62DAP	0.8477	0.641
68DAP/14DAP	0.82749	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.25956	0.558

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.78957	0.265
Mature Green Tomato/Ripe Tomato	1.15821	0.948
Immature Eggplant/Mature Eggplant	0.98599	1
Ripe Pepper/Ripe Tomato	0.66242	1
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	1.22607
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	0.95042
4-3/M82	3.3761
5-3/M82	0.73293
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	0.57106

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.04036	1
IL2-6/WTpooled	1.51296	0.531
IL7-5/WTpooled	0.98031	1
IL7-3/WTpooled	0.66264
IL12-4/WTpooled	1.20453	0.538
IL1-4/WTpooled	1.00096	1
WT/WTpooled	1.08008	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	1.06322	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02303	1
DC3000/delta hrp 6h	1.10831	1
DC3000/delta hrp 12h	1.32202	1
DC3000/delta hrp 24h	0.51167	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.8827	0.318
DC3000 delta B/DC3000 delta AB	0.96259	0.729

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.21584	1
Exp 36h	0.96023	0.943
Exp 60h	1.1734	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97463	1
Var 0h	1.30722	0.594
Var 12h I row2-row1	0.79936	0.467
Var 12h NI row2-row1	0.99289	1
Var 36h I row2-row1	1.22857	0.742
Var 36h NI row2-row1	1.31615	0.253
Var 60h I row2-row1	1.10894	0.271
Var 60h NI row2-row1	1.14578	0.904
Time course 0hI-0hNI	0.97687	0.917
Time course 12hI-12hNI	0.86357	0.102
Time course 36hI-36hNI	0.75843	0.038
Time course 60hI-60hNI	0.21477	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)	1.10648	0.287
transgenic ySAMdc/azygous control (breaker)	0.97702	1
transgenic ySAMdc/azygous control (red)	0.89054	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.88487	0.242

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.19377	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.89026	0.086
Manapal/WT (break)	1.11196	0.381
Manapal/WT (red)	1.14884	0.413