Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.13.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.5845	0.119
27DAP/17DAP	1.13496	0.847
39DAP/27DAP	0.84008	0.522
41DAP/39DAP	1.34202	0.292
42DAP/41DAP	0.88308	1
43DAP/42DAP	1.24747	1
47DAP/43DAP	0.74247	0.29
52DAP/47DAP	1.48001	0.425
57DAP/52DAP	0.95561	0.956

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0678	0.441
17DAP/reference	0.95779	0.448
27DAP/reference	0.96083	0.457
39DAP/reference	0.95609	0.475
41DAP/reference	1.06486	0.421
42DAP/reference	0.93546	0.088
43DAP/reference	0.98291	0.763
47DAP/reference	0.95989	0.207
52DAP/reference	0.88827	0.152
57DAP/reference	0.87344	0.04

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.29276	0.024
27DAP/17DAP	0.95168	0.684
39DAP/27DAP	1.06554	1
41DAP/39DAP	1.00751	0.986
42DAP/41DAP	0.77383	0.101
43DAP/42DAP	1.24235	0.147
47DAP/43DAP	0.84404	0.428
52DAP/47DAP	1.51611	0.174
57DAP/52DAP	1.19852	0.462
57DAP/7DAP	0.68029	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07318	0.589
17DAP/reference	1.39715	0.006
27DAP/reference	1.35883	0.008
39DAP/reference	1.45975	0.013
41DAP/reference	1.4842	0.023
42DAP/reference	1.22955	0.014
43DAP/reference	1.40447	0.034
47DAP/reference	1.24823	0.021
52DAP/reference	1.22503	0.149
57DAP/reference	1.09193	0.612

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09684	0.258
17DAP/reference	1.10362	0.147
27DAP/reference	0.97773	0.452
39DAP/reference	1.03387	0.868
41DAP/reference	0.92695	0.199
42DAP/reference	0.90987	0.135
43DAP/reference	1.05256	1
47DAP/reference	1.01303	0.89
52DAP/reference	1.09674	0.343
57DAP/reference	1.02867	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14095	0.303
17DAP/reference	1.19202	0.179
27DAP/reference	1.64827	0.019
39DAP/reference	1.40026	0.01
41DAP/reference	1.51636	0.008
42DAP/reference	1.27037	0.063
43DAP/reference	1.17551	0.634
47DAP/reference	0.96511	0.478
52DAP/reference	1.35708	0.132
57DAP/reference	0.9543	0.41

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0242	1
26DAP/20DAP	1.22838	0.453
34DAP/26DAP	1.03279	1
51DAP/34DAP	1.01782	0.946
52DAP/51DAP	0.84899	1
53DAP/52DAP	0.7078
55DAP/53DAP	0.99135	0.886
57DAP/55DAP	1.35131	0.037
62DAP/57DAP	1.1241	1
68DAP/62DAP	1.22027	1
68DAP/14DAP	1.01061	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.88583	0.341

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.61112	0.058
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.0233	1
Ripe Pepper/Ripe Tomato	0.81425
Mature Eggplant/Ripe Tomato	11.2615	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.92925
1-1-2/M82	0.90854
12-2/M82	1.06655
12-4/M82	0.98298
1-3/M82	0.6565	0.378
2-1-1/M82	0.90838
2-1/M82	N/A	N/A
2-6/M82	0.91156	1
3-2/M82	0.8195
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	1.02622	1
6-2/M82	0.98965
6-3/M82	1.06234	1
7-1/M82	0.86929	0.803
7-2/M82	0.63434	0.599
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.24283	0.277
IL2-6/WTpooled	0.78908	0.358
IL7-5/WTpooled	1.65272	0.792
IL7-3/WTpooled	1.0707	1
IL12-4/WTpooled	0.79905	0.478
IL1-4/WTpooled	1.05917	1
WT/WTpooled	0.98625	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05501	0.921
DC3000/delta hrp 6h	1.16056	1
DC3000/delta hrp 12h	0.97232	1
DC3000/delta hrp 24h	0.92351	0.554

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	0.30829	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99755	1
Exp 36h	0.78504	0.504
Exp 60h	0.98123	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95641	1
Var 0h	1.24162	0.216
Var 12h I row2-row1	0.7183	0.379
Var 12h NI row2-row1	0.65583	0.546
Var 36h I row2-row1	0.69456	0.34
Var 36h NI row2-row1	0.41781	0.329
Var 60h I row2-row1	0.91433
Var 60h NI row2-row1	1.33116	0.904
Time course 0hI-0hNI	0.82298	0.058
Time course 12hI-12hNI	0.75676	0.117
Time course 36hI-36hNI	0.51666	0.067
Time course 60hI-60hNI	0.15561	0.007

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)	0.9481	0.567
transgenic ySAMdc/azygous control (breaker)	0.591	0.131
transgenic ySAMdc/azygous control (red)	0.91234	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99684	0.858

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.14456	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.04588	1
Manapal/WT (break)	1.13722	1
Manapal/WT (red)	0.87084	0.607