Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.18.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86148	0.389
27DAP/17DAP	1.28564	0.749
39DAP/27DAP	0.86262	0.573
41DAP/39DAP	1.06141	0.909
42DAP/41DAP	0.86748	1
43DAP/42DAP	1.34791	0.962
47DAP/43DAP	0.90929	0.68
52DAP/47DAP	1.53915	0.198
57DAP/52DAP	1.07399	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87017	0.101
17DAP/reference	0.8108	0.014
27DAP/reference	0.97597	0.654
39DAP/reference	0.95259	0.306
41DAP/reference	0.74115	0.008
42DAP/reference	0.98132	0.315
43DAP/reference	0.88412	0.04
47DAP/reference	0.99991	0.674
52DAP/reference	1.1071	0.663
57DAP/reference	1.32019	0.009

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03919	0.87
27DAP/17DAP	1.00829	1
39DAP/27DAP	1.00248	1
41DAP/39DAP	1.04871	0.861
42DAP/41DAP	0.96799	0.721
43DAP/42DAP	0.94477	0.466
47DAP/43DAP	0.9666	0.833
52DAP/47DAP	0.83287	0.405
57DAP/52DAP	0.93763	0.598
57DAP/7DAP	0.85974	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94367	0.326
17DAP/reference	0.92871	0.124
27DAP/reference	1.07909	0.301
39DAP/reference	0.9833	0.552
41DAP/reference	1.06525	0.416
42DAP/reference	1.31145	0.046
43DAP/reference	1.02564	0.873
47DAP/reference	1.10968	0.345
52DAP/reference	0.95852	0.332
57DAP/reference	0.89947	0.118

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8975	0.268
17DAP/reference	0.80986	0.047
27DAP/reference	0.96062	0.393
39DAP/reference	1.05283	0.588
41DAP/reference	1.12038	0.07
42DAP/reference	1.01543	1
43DAP/reference	0.79822	0.018
47DAP/reference	0.93661	0.184
52DAP/reference	0.99864	0.761
57DAP/reference	0.72463	0.005

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88735	0.065
17DAP/reference	0.94257	0.239
27DAP/reference	1.0433	0.425
39DAP/reference	1.11807	0.097
41DAP/reference	1.11754	0.249
42DAP/reference	1.05251	0.671
43DAP/reference	0.97829	0.59
47DAP/reference	0.88531	0.191
52DAP/reference	0.93199	0.464
57DAP/reference	1.24547	0.086

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97892	1
26DAP/20DAP	1.46414	0.192
34DAP/26DAP	0.8969	0.61
51DAP/34DAP	1.38874	0.057
52DAP/51DAP	0.70124	0.151
53DAP/52DAP	1.28	0.067
55DAP/53DAP	0.8984	0.43
57DAP/55DAP	1.14611	0.865
62DAP/57DAP	1.06734	1
68DAP/62DAP	1.34692	0.845
68DAP/14DAP	2.54387	0.02

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.61121	0.032

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.86956	0.356
Mature Green Tomato/Ripe Tomato	0.1989	0.051
Immature Eggplant/Mature Eggplant	1.25193	0.105
Ripe Pepper/Ripe Tomato	2.26491	0.256
Mature Eggplant/Ripe Tomato	2.28932	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.1088	0.877
1-1-2/M82	1.04531	1
12-2/M82	1.16871	0.61
12-4/M82	0.97463	1
1-3/M82	1.89317	0.479
2-1-1/M82	0.93452	0.784
2-1/M82	0.95017	1
2-6/M82	0.81446	0.501
3-2/M82	1.00749
4-1-1/M82	0.843	1
4-1/M82	1.42247	0.512
4-3-2/M82	1.25009	1
4-3/M82	1.05456	0.268
5-3/M82	0.95266	1
6-2/M82	0.71217	1
6-3/M82	0.9354	1
7-1/M82	0.9476
7-2/M82	0.88008	0.881
9-3-2/M82	1.61931

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	N/A	N/A
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	0.96547	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11527	0.846
DC3000/delta hrp 6h	0.90863	0.95
DC3000/delta hrp 12h	0.96672	1
DC3000/delta hrp 24h	0.95682	0.682

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	1.27595	0.19

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.11951	0.254
Exp 36h	1.1102	1
Exp 60h	1.01573	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98036	1
Var 0h	0.97671	1
Var 12h I row2-row1	1.98069	0.473
Var 12h NI row2-row1	0.9591	0.82
Var 36h I row2-row1	1.042	1
Var 36h NI row2-row1	0.8789	0.478
Var 60h I row2-row1	0.86549	0.582
Var 60h NI row2-row1	0.85521	0.318
Time course 0hI-0hNI	0.92491	0.475
Time course 12hI-12hNI	1.01739	0.867
Time course 36hI-36hNI	1.12658	0.009
Time course 60hI-60hNI	1.60257	0.009

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)	1.22002	0.321
transgenic ySAMdc/azygous control (breaker)	0.68689	0.137
transgenic ySAMdc/azygous control (red)	0.94073	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98123	0.334

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.7449	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.64513	1
Manapal/WT (break)	1.20445	0.381
Manapal/WT (red)	0.96102	0.184