Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.8.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16864	0.932
27DAP/17DAP	0.88621	0.833
39DAP/27DAP	0.79394	0.402
41DAP/39DAP	1.3314	0.833
42DAP/41DAP	1.10365	0.938
43DAP/42DAP	1.00181	0.937
47DAP/43DAP	0.98738	0.847
52DAP/47DAP	1.65502	0.463
57DAP/52DAP	1.0357	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14871	0.522
17DAP/reference	1.06376	0.907
27DAP/reference	1.17844	0.2
39DAP/reference	1.09604	0.664
41DAP/reference	0.90068	0.542
42DAP/reference	1.2161	0.039
43DAP/reference	1.082
47DAP/reference	1.00167	0.674
52DAP/reference	0.90264	0.438
57DAP/reference	1.09258	0.621

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.75699	0.251
27DAP/17DAP	1.10871	0.677
39DAP/27DAP	0.82531	0.076
41DAP/39DAP	1.30199	0.455
42DAP/41DAP	0.89049	0.384
43DAP/42DAP	1.17082	0.513
47DAP/43DAP	1.05223	0.969
52DAP/47DAP	0.92463	0.801
57DAP/52DAP	0.97538	0.7
57DAP/7DAP	1.07029	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.65587
17DAP/reference	1.06525	0.896
27DAP/reference	N/A	N/A
39DAP/reference	0.69695	0.013
41DAP/reference	0.72445	0.047
42DAP/reference	0.76325	0.033
43DAP/reference	0.78643	0.066
47DAP/reference	0.7844	0.168
52DAP/reference	1.16052	0.375
57DAP/reference	1.13984	0.214

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.55489	0.015
17DAP/reference	0.56904	0.008
27DAP/reference	1.00652	1
39DAP/reference	0.98317	0.621
41DAP/reference	1.53072	0.118
42DAP/reference	0.64026
43DAP/reference	0.81884	0.111
47DAP/reference	1.10696	0.916
52DAP/reference	0.7788	0.051
57DAP/reference	0.86787	0.169

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01132	0.699
17DAP/reference	N/A	N/A
27DAP/reference	N/A	N/A
39DAP/reference	N/A	N/A
41DAP/reference	1.40459	0.062
42DAP/reference	1.27067	0.658
43DAP/reference	1.63496	0.094
47DAP/reference	0.82685	0.24
52DAP/reference	1.6525	0.216
57DAP/reference	0.93393	0.672

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03509	1
26DAP/20DAP	1.31582	0.442
34DAP/26DAP	1.27865	1
51DAP/34DAP	0.76384	0.079
52DAP/51DAP	1.05816	0.708
53DAP/52DAP	0.96787	0.862
55DAP/53DAP	0.93879	0.698
57DAP/55DAP	1.05702	0.817
62DAP/57DAP	1.01662	1
68DAP/62DAP	1.56599	0.135
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.92311	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	6.51112
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
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	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	0.65043
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	1.15588

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.61356	0.243
IL2-6/WTpooled	0.78175	0.473
IL7-5/WTpooled	0.8654	1
IL7-3/WTpooled	0.67194	0.418
IL12-4/WTpooled	0.65877	0.581
IL1-4/WTpooled	0.78199	0.562
WT/WTpooled	1.13703	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	1.0306	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.29537
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	N/A	N/A

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.13283	0.441
DC3000 delta B/DC3000 delta AB	0.7021

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
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	0.98899	1
Var 0h	0.98306	1
Var 12h I row2-row1	0.95932	0.948
Var 12h NI row2-row1	1.01309	1
Var 36h I row2-row1	1.11365	1
Var 36h NI row2-row1	0.60538	0.645
Var 60h I row2-row1	0.95892	0.952
Var 60h NI row2-row1	1.02637	1
Time course 0hI-0hNI	0.97664	0.881
Time course 12hI-12hNI	1.02685	0.756
Time course 36hI-36hNI	0.86282	0.111
Time course 60hI-60hNI	1.63956	0.01

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.5359	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.78057	0.172
Manapal/WT (break)	0.55776	0.299
Manapal/WT (red)	0.93922	0.863