Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.6.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94523	0.671
27DAP/17DAP	0.71754	0.179
39DAP/27DAP	0.73258	0.253
41DAP/39DAP	1.3552	0.088
42DAP/41DAP	0.88916	1
43DAP/42DAP	1.35345	0.349
47DAP/43DAP	1.18896	0.394
52DAP/47DAP	0.80662	0.534
57DAP/52DAP	1.01214	0.982

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99041	0.562
17DAP/reference	1.03287	0.104
27DAP/reference	1.03296	0.709
39DAP/reference	0.90815	0.324
41DAP/reference	0.83735	0.267
42DAP/reference	0.96825	0.326
43DAP/reference	1.01358	0.899
47DAP/reference	0.86652	0.013
52DAP/reference	0.88889	0.047
57DAP/reference	1.0156	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06009	0.642
27DAP/17DAP	1.06031	0.954
39DAP/27DAP	1.03996	1
41DAP/39DAP	1.04191	0.849
42DAP/41DAP	1.02305	1
43DAP/42DAP	1.01347	1
47DAP/43DAP	0.98268	0.911
52DAP/47DAP	0.92395	0.472
57DAP/52DAP	0.92909	0.56
57DAP/7DAP	0.89986	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16324	0.399
17DAP/reference	1.0623	1
27DAP/reference	1.01311	1
39DAP/reference	0.93341	0.264
41DAP/reference	0.96746	0.449
42DAP/reference	0.90865	0.211
43DAP/reference	1.25379	0.124
47DAP/reference	0.89586	0.383
52DAP/reference	1.11819	0.401
57DAP/reference	1.19263	0.268

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91484	0.296
17DAP/reference	0.90112	0.223
27DAP/reference	0.88704	0.195
39DAP/reference	0.87217	0.11
41DAP/reference	0.98534	0.505
42DAP/reference	1.05502	0.697
43DAP/reference	0.85165	0.087
47DAP/reference	1.01422	0.994
52DAP/reference	0.90573	0.38
57DAP/reference	0.81197	0.208

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15266	0.079
17DAP/reference	0.99959	0.751
27DAP/reference	1.29103	0.143
39DAP/reference	1.19028	0.235
41DAP/reference	1.0947	0.637
42DAP/reference	0.77473	0.361
43DAP/reference	1.35007	0.388
47DAP/reference	0.91975	0.335
52DAP/reference	1.00582	0.663
57DAP/reference	1.08208	0.491

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.90494	0.997
26DAP/20DAP	1.23484	0.415
34DAP/26DAP	1.07618	1
51DAP/34DAP	0.79226	0.152
52DAP/51DAP	0.90077	1
53DAP/52DAP	0.82445	0.649
55DAP/53DAP	0.91262	0.544
57DAP/55DAP	1.18593	0.682
62DAP/57DAP	N/A	N/A
68DAP/62DAP	1.29335	0.455
68DAP/14DAP	0.5967

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.27536	1

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	9.66683	0.26

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	N/A	N/A
IL2-6/WTpooled	0.924	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.98672	1
IL12-4/WTpooled	0.87001	0.52
IL1-4/WTpooled	1.11154	1
WT/WTpooled	0.92059	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	1.28928	0.222

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93561	0.063
DC3000/delta hrp 6h	1.11393	0.95
DC3000/delta hrp 12h	1.27057	1
DC3000/delta hrp 24h	1.21736	0.84

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	1.15617	0.693
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	0.98568	1
Var 0h	1.12361	1
Var 12h I row2-row1	0.90467	0.514
Var 12h NI row2-row1	1.10414	0.649
Var 36h I row2-row1	1.08833	1
Var 36h NI row2-row1	1.41214	1
Var 60h I row2-row1	0.973	0.952
Var 60h NI row2-row1	0.72879	0.302
Time course 0hI-0hNI	0.91233	0.23
Time course 12hI-12hNI	0.9988	1
Time course 36hI-36hNI	0.9814	0.589
Time course 60hI-60hNI	1.47115	0.009

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)	0.96943	0.662
transgenic ySAMdc/azygous control (breaker)	1.34455	0.178
transgenic ySAMdc/azygous control (red)	0.87964	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95316	0.263

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.26189	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.899	1
Manapal/WT (break)	1.15664	1
Manapal/WT (red)	1.11056	1