Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.4.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01019	0.961
27DAP/17DAP	1.09547	0.854
39DAP/27DAP	0.8619	0.507
41DAP/39DAP	1.15239	0.685
42DAP/41DAP	0.97749	1
43DAP/42DAP	0.99635	0.937
47DAP/43DAP	1.1514	0.702
52DAP/47DAP	0.87234	0.637
57DAP/52DAP	1.04027	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04014	0.685
17DAP/reference	1.3764	0.342
27DAP/reference	1.03396	0.66
39DAP/reference	1.02108	0.664
41DAP/reference	0.94025	0.341
42DAP/reference	0.94906	0.134
43DAP/reference	1.34016
47DAP/reference	0.82327	0.3
52DAP/reference	0.99387	0.709
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93033	0.402
27DAP/17DAP	1.14205	0.554
39DAP/27DAP	0.98907	0.977
41DAP/39DAP	0.98905	1
42DAP/41DAP	1.03943	0.651
43DAP/42DAP	1.10597	0.585
47DAP/43DAP	0.97713	0.805
52DAP/47DAP	0.99125	0.941
57DAP/52DAP	0.97591	0.668
57DAP/7DAP	1.00453	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0035	1
17DAP/reference	0.83089	0.018
27DAP/reference	0.84016	0.039
39DAP/reference	0.92561	0.095
41DAP/reference	0.94328	0.298
42DAP/reference	0.894	0.017
43DAP/reference	0.83342	0.069
47DAP/reference	0.88249	0.128
52DAP/reference	0.76451	0.012
57DAP/reference	0.93323	0.291

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15856	0.073
17DAP/reference	1.03046	0.613
27DAP/reference	1.04588	0.583
39DAP/reference	1.02832	0.868
41DAP/reference	0.90778	0.081
42DAP/reference	0.93598	0.189
43DAP/reference	0.98973	0.736
47DAP/reference	0.97277	0.349
52DAP/reference	1.00508	1
57DAP/reference	1.0783	0.236

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	4.60998	0.05
17DAP/reference	0.99006	0.751
27DAP/reference	1.10264	1
39DAP/reference	0.79737	0.018
41DAP/reference	0.857	0.077
42DAP/reference	5.68916	0.076
43DAP/reference	2.35014	0.285
47DAP/reference	0.92265	0.249
52DAP/reference	3.34208	0.136
57DAP/reference	1.0488	0.288

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05166	0.966
26DAP/20DAP	0.91458	0.512
34DAP/26DAP	0.99479	1
51DAP/34DAP	1.01699	0.936
52DAP/51DAP	0.96972	1
53DAP/52DAP	1.06083	0.921
55DAP/53DAP	0.90408	0.478
57DAP/55DAP	1.14552	0.543
62DAP/57DAP	1.15323	0.767
68DAP/62DAP	1.00579	1
68DAP/14DAP	0.85584	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.94245	0.269

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.44953	0.075
Mature Green Tomato/Ripe Tomato	1.55244	0.331
Immature Eggplant/Mature Eggplant	0.9663	0.651
Ripe Pepper/Ripe Tomato	0.83236	0.224
Mature Eggplant/Ripe Tomato	1.2885	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.86286
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	0.95875
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.1847	0.695
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	1.03067	1
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	0.94568
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	0.89059

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.05563
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.8528
IL1-4/WTpooled	1.2999
WT/WTpooled	N/A	N/A

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	1.17324	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97304	1
DC3000/delta hrp 6h	0.81503	0.874
DC3000/delta hrp 12h	1.0876	1
DC3000/delta hrp 24h	0.96104	0.736

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.02335	0.598
DC3000 delta B/DC3000 delta AB	1.09821	0.335

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.95073	1
Exp 36h	1.07079	1
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	1.01933	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.06297
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	0.9455	1
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	1.04172	0.852
Time course 12hI-12hNI	0.95374	0.569
Time course 36hI-36hNI	1.01244	0.975
Time course 60hI-60hNI	1.31771	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)	0.9731	0.662
transgenic ySAMdc/azygous control (breaker)	1.54639	0.178
transgenic ySAMdc/azygous control (red)	1.36315	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01385	0.35

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.0523	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.81309	1
Manapal/WT (break)	0.94153	1
Manapal/WT (red)	1.46149	0.222