Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.19.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84391	0.436
27DAP/17DAP	1.35836	0.801
39DAP/27DAP	1.16461	1
41DAP/39DAP	1.01763	0.905
42DAP/41DAP	0.92301	1
43DAP/42DAP	1.32364	0.595
47DAP/43DAP	1.27926	0.68
52DAP/47DAP	1.66679	0.23
57DAP/52DAP	1.28214	0.958

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7977	0.029
17DAP/reference	0.95047	0.224
27DAP/reference	1.03274	0.925
39DAP/reference	0.99102	0.874
41DAP/reference	0.85912	0.114
42DAP/reference	0.83731	0.019
43DAP/reference	0.95958	0.5
47DAP/reference	0.97684	0.418
52DAP/reference	0.86109	0.05
57DAP/reference	0.91953	0.277

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95645	0.629
27DAP/17DAP	0.91516	0.132
39DAP/27DAP	1.27316	0.128
41DAP/39DAP	1.21462	0.197
42DAP/41DAP	0.93301	0.576
43DAP/42DAP	1.28425	0.212
47DAP/43DAP	1.1421	0.2
52DAP/47DAP	0.96553	0.899
57DAP/52DAP	1.08563	0.618
57DAP/7DAP	1.26971	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93168	0.224
17DAP/reference	0.69596	0.011
27DAP/reference	0.817	0.015
39DAP/reference	0.81063	0.011
41DAP/reference	0.79089	0.03
42DAP/reference	0.76546	0.055
43DAP/reference	0.8195	0.051
47DAP/reference	0.92976	0.504
52DAP/reference	0.83202	0.035
57DAP/reference	0.85442	0.05

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83853	0.152
17DAP/reference	0.7394	0.006
27DAP/reference	0.88062	0.155
39DAP/reference	0.81309	0.025
41DAP/reference	0.94132	0.145
42DAP/reference	0.84428	0.046
43DAP/reference	0.83131	0.152
47DAP/reference	0.90609	0.028
52DAP/reference	0.92079	0.131
57DAP/reference	0.78975	0.021

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82097	0.074
17DAP/reference	0.8747	0.224
27DAP/reference	0.83459	0.065
39DAP/reference	0.78022	0.007
41DAP/reference	0.79835	0.027
42DAP/reference	0.73664	0.014
43DAP/reference	0.86524	0.076
47DAP/reference	0.95539	0.383
52DAP/reference	0.77327	0.102
57DAP/reference	0.90131	0.234

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.26966	0.496
26DAP/20DAP	0.94645	1
34DAP/26DAP	0.89348	0.898
51DAP/34DAP	1.33156	0.473
52DAP/51DAP	0.95449	1
53DAP/52DAP	1.1223	0.58
55DAP/53DAP	0.96264	0.796
57DAP/55DAP	1.15129	0.865
62DAP/57DAP	1.39861	0.217
68DAP/62DAP	1.36357	0.383
68DAP/14DAP	1.43489	0.17

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.87443	0.422

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.22385	0.835
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.75149

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.9918
12-2/M82	N/A	N/A
12-4/M82	0.9435	0.358
1-3/M82	N/A	N/A
2-1-1/M82	0.78848
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	1.17152	1
5-3/M82	1.20464	0.467
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.00873
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	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.36993
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	1.43624	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.46559
DC3000/delta hrp 6h	1.17392	1
DC3000/delta hrp 12h	1.10757	1
DC3000/delta hrp 24h	0.86508

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.19741
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	0.75455	1
Exp 36h	N/A	N/A
Exp 60h	1.18278	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.08524	1
Var 0h	1.16743	0.936
Var 12h I row2-row1	1.09937	0.473
Var 12h NI row2-row1	1.39714	0.649
Var 36h I row2-row1	1.31306	0.489
Var 36h NI row2-row1	0.88222	0.706
Var 60h I row2-row1	0.71257	0.293
Var 60h NI row2-row1	0.61433	0.408
Time course 0hI-0hNI	1.08843	0.764
Time course 12hI-12hNI	2.23788	0.016
Time course 36hI-36hNI	2.94818	0.005
Time course 60hI-60hNI	7.31494	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)	1.30123	0.3
transgenic ySAMdc/azygous control (breaker)	0.64108	0.142
transgenic ySAMdc/azygous control (red)	1.07085	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02979	0.261

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.18434	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.47381	0.307
Manapal/WT (break)	1.2008	1
Manapal/WT (red)	0.64309	0.188