Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.4.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91354	0.522
27DAP/17DAP	0.96225	0.964
39DAP/27DAP	1.06125	0.985
41DAP/39DAP	1.22845	0.259
42DAP/41DAP	1.08367	0.899
43DAP/42DAP	1.07435	1
47DAP/43DAP	0.9632	0.828
52DAP/47DAP	1.28339	0.538
57DAP/52DAP	1.09345	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0387	0.587
17DAP/reference	0.95989	0.321
27DAP/reference	0.97493	0.525
39DAP/reference	0.96146	0.455
41DAP/reference	0.95612	0.154
42DAP/reference	0.97766	0.295
43DAP/reference	1.10026	0.074
47DAP/reference	0.91758	0.025
52DAP/reference	0.90243	0.099
57DAP/reference	0.83998	0.03

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96471	0.542
27DAP/17DAP	0.97584	0.821
39DAP/27DAP	1.02835	0.654
41DAP/39DAP	1.02753	0.88
42DAP/41DAP	1.04532	0.81
43DAP/42DAP	1.02958	0.351
47DAP/43DAP	1.01059	0.957
52DAP/47DAP	0.97235	0.886
57DAP/52DAP	0.95589	0.546
57DAP/7DAP	1.03184	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15937	0.1
17DAP/reference	1.00059	1
27DAP/reference	0.9543	0.185
39DAP/reference	1.08329	0.059
41DAP/reference	0.99352	0.646
42DAP/reference	1.05486	0.308
43DAP/reference	1.04984	0.325
47DAP/reference	1.03232	0.659
52DAP/reference	1.07738	0.098
57DAP/reference	1.06289	0.061

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1319	0.09
17DAP/reference	1.06642	0.21
27DAP/reference	1.0579	0.488
39DAP/reference	1.07421	0.225
41DAP/reference	0.91723	0.042
42DAP/reference	0.93573	0.135
43DAP/reference	1.01238	0.892
47DAP/reference	0.95011	0.27
52DAP/reference	0.92343	0.111
57DAP/reference	1.0129	0.98

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08489	0.212
17DAP/reference	1.01171	0.854
27DAP/reference	0.96684	0.257
39DAP/reference	0.98334	0.328
41DAP/reference	0.97846	0.185
42DAP/reference	0.9284	0.287
43DAP/reference	1.05057	0.369
47DAP/reference	0.94634	0.224
52DAP/reference	0.89662	0.296
57DAP/reference	0.89542	0.092

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.14913	0.966
26DAP/20DAP	1.34137	0.197
34DAP/26DAP	0.9328	0.584
51DAP/34DAP	0.81771	0.104
52DAP/51DAP	0.93759	0.151
53DAP/52DAP	0.83404	0.311
55DAP/53DAP	0.94351	0.233
57DAP/55DAP	1.11211	0.424
62DAP/57DAP	1.20197	0.35
68DAP/62DAP	1.14148	0.885
68DAP/14DAP	0.86322	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.87187	0.062

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.1831	0.417
Mature Green Tomato/Ripe Tomato	1.17122	0.752
Immature Eggplant/Mature Eggplant	1.36919	0.052
Ripe Pepper/Ripe Tomato	1.7709	1
Mature Eggplant/Ripe Tomato	2.16198	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94508	0.613
1-1-2/M82	1.05613	1
12-2/M82	1.06795	1
12-4/M82	0.97805	1
1-3/M82	1.18462	0.277
2-1-1/M82	0.96453	0.92
2-1/M82	0.85909	0.322
2-6/M82	1.03072	1
3-2/M82	0.9005	0.752
4-1-1/M82	0.90316	0.985
4-1/M82	0.73157	1
4-3-2/M82	1.03233	1
4-3/M82	1.14021	1
5-3/M82	1.06622	0.572
6-2/M82	0.97408	1
6-3/M82	1.03791	1
7-1/M82	0.99161	1
7-2/M82	1.07783	0.385
9-3-2/M82	0.95271	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.47564	0.441
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.86281	0.418
IL12-4/WTpooled	0.72979	0.566
IL1-4/WTpooled	1.18179
WT/WTpooled	0.90936	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	1.10153	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06354	0.846
DC3000/delta hrp 6h	0.91369	0.95
DC3000/delta hrp 12h	1.1208	1
DC3000/delta hrp 24h	0.94676	0.554

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.08237	0.29
DC3000 delta B/DC3000 delta AB	1.11316	0.327

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.9362	1
Exp 36h	1.38773	0.693
Exp 60h	1.15547	1

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.96477	0.457
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
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	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	0.89133	0.315
transgenic ySAMdc/azygous control (breaker)	1.22997	0.248
transgenic ySAMdc/azygous control (red)	1.09597	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0277	0.142

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.89303	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.84527	1
Manapal/WT (break)	0.95593	1
Manapal/WT (red)	1.00807	1