Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.7.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08107	0.823
27DAP/17DAP	1.27675	0.785
39DAP/27DAP	1.13169	0.838
41DAP/39DAP	1.00321	0.941
42DAP/41DAP	1.00885	1
43DAP/42DAP	1.04604	1
47DAP/43DAP	1.07405	0.659
52DAP/47DAP	0.91685	0.752
57DAP/52DAP	1.05487	0.96

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79766	0.024
17DAP/reference	0.96914	0.567
27DAP/reference	0.99038	0.779
39DAP/reference	0.96564	0.298
41DAP/reference	1.11749	0.338
42DAP/reference	1.12785	0.21
43DAP/reference	0.94352	0.5
47DAP/reference	0.90425	0.01
52DAP/reference	0.80754	0.022
57DAP/reference	0.85748	0.039

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87718	0.131
27DAP/17DAP	1.06084	0.9
39DAP/27DAP	1.02109	0.728
41DAP/39DAP	1.07102	0.497
42DAP/41DAP	0.96701	0.772
43DAP/42DAP	0.9314	0.127
47DAP/43DAP	1.04357	0.681
52DAP/47DAP	1.05877	0.8
57DAP/52DAP	0.989	0.828
57DAP/7DAP	1.15411	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83029	0.157
17DAP/reference	0.97212	0.192
27DAP/reference	1.00243	1
39DAP/reference	0.96853	0.109
41DAP/reference	0.98262	0.538
42DAP/reference	1.07891	0.024
43DAP/reference	1.02461	0.672
47DAP/reference	1.57374	0.071
52DAP/reference	1.00923	1
57DAP/reference	1.10059	0.5

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92868	0.286
17DAP/reference	0.94738	0.129
27DAP/reference	1.09247	0.254
39DAP/reference	1.71714	0.09
41DAP/reference	1.12832	0.536
42DAP/reference	1.05476	0.81
43DAP/reference	1.87018	0.036
47DAP/reference	1.54125	0.065
52DAP/reference	1.13639	0.019
57DAP/reference	2.24553	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98434	0.607
17DAP/reference	1.14933	0.511
27DAP/reference	0.8772	0.465
39DAP/reference	1.06604	0.091
41DAP/reference	1.02923	0.657
42DAP/reference	0.91362	0.361
43DAP/reference	0.83815	0.044
47DAP/reference	0.84298	0.013
52DAP/reference	0.92976	0.424
57DAP/reference	0.69836	0.027

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99175	1
26DAP/20DAP	0.89375	0.317
34DAP/26DAP	1.07657	0.542
51DAP/34DAP	0.96959	0.799
52DAP/51DAP	1.11673	0.225
53DAP/52DAP	1.02869	0.845
55DAP/53DAP	1.04958	0.834
57DAP/55DAP	0.95346	0.789
62DAP/57DAP	1.1306	0.622
68DAP/62DAP	0.90906	0.7
68DAP/14DAP	0.8197	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.94591	0.322

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.76178	0.237
Immature Eggplant/Mature Eggplant	7.28114
Ripe Pepper/Ripe Tomato	0.18186	1
Mature Eggplant/Ripe Tomato	0.25474	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.41225	0.613
1-1-2/M82	1.12774	1
12-2/M82	2.08245
12-4/M82	1.09271	1
1-3/M82	2.55736
2-1-1/M82	N/A	N/A
2-1/M82	2.96733
2-6/M82	1.61769	0.351
3-2/M82	N/A	N/A
4-1-1/M82	4.95637
4-1/M82	N/A	N/A
4-3-2/M82	7.19597
4-3/M82	0.94096
5-3/M82	1.75994	0.467
6-2/M82	12.859	0.253
6-3/M82	1.23396	1
7-1/M82	0.22426
7-2/M82	2.5431	0.385
9-3-2/M82	0.7182

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.79834	0.243
IL2-6/WTpooled	0.99698	1
IL7-5/WTpooled	0.8919	1
IL7-3/WTpooled	0.79966	0.294
IL12-4/WTpooled	1.04393	1
IL1-4/WTpooled	0.98001	0.834
WT/WTpooled	1.0283	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	1.33873	0.177

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0203	1
DC3000/delta hrp 6h	1.00907	0.95
DC3000/delta hrp 12h	1.15734	1
DC3000/delta hrp 24h	2.90065	0.026

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.3022	0.094
DC3000 delta B/DC3000 delta AB	1.69189	0.081

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.81519	1
Exp 36h	1.47274	1
Exp 60h	2.66709	0.227

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99284	1
Var 0h	0.55171	0.933
Var 12h I row2-row1	0.80539	0.565
Var 12h NI row2-row1	1.47202	0.34
Var 36h I row2-row1	1.24385	0.908
Var 36h NI row2-row1	0.60058	0.478
Var 60h I row2-row1	0.78602	0.582
Var 60h NI row2-row1	0.73649	0.298
Time course 0hI-0hNI	1.12631	0.833
Time course 12hI-12hNI	1.08973	0.724
Time course 36hI-36hNI	2.285	0.004
Time course 60hI-60hNI	5.89361	0.008

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)	0.40302	0.249
transgenic ySAMdc/azygous control (breaker)	0.47616	0.131
transgenic ySAMdc/azygous control (red)	0.95986	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.88459	0.038

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.27934	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.96396	1
Manapal/WT (break)	0.38893	0.333
Manapal/WT (red)	0.58225	0.36