Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.10.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88565	0.405
27DAP/17DAP	0.99756	1
39DAP/27DAP	1.00047	0.876
41DAP/39DAP	0.93348	0.717
42DAP/41DAP	0.97963	1
43DAP/42DAP	1.02115	0.937
47DAP/43DAP	1.36788	0.267
52DAP/47DAP	0.90134	0.668
57DAP/52DAP	1.08136	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06204	0.638
17DAP/reference	1.14862	0.077
27DAP/reference	0.91182	0.265
39DAP/reference	1.02736	0.628
41DAP/reference	1.01698	1
42DAP/reference	0.90801	0.045
43DAP/reference	1.0423	0.547
47DAP/reference	0.92335	0.116
52DAP/reference	0.74546	0.055
57DAP/reference	0.7028	0.016

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86475	0.219
27DAP/17DAP	0.93923	0.854
39DAP/27DAP	0.92606	0.432
41DAP/39DAP	0.85661	0.137
42DAP/41DAP	0.96258	0.708
43DAP/42DAP	1.06794	0.699
47DAP/43DAP	1.03604	0.914
52DAP/47DAP	0.84729	0.316
57DAP/52DAP	1.00076	0.862
57DAP/7DAP	0.87378	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00267	0.758
17DAP/reference	0.85224	0.035
27DAP/reference	0.86805	0.109
39DAP/reference	1.03686	1
41DAP/reference	0.76666	0.027
42DAP/reference	0.84446	0.136
43DAP/reference	0.80799	0.049
47DAP/reference	1.13695	0.272
52DAP/reference	0.85849	0.115
57DAP/reference	0.7894	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.32014	0.139
17DAP/reference	0.99642	0.642
27DAP/reference	1.15292	0.757
39DAP/reference	0.92525	0.298
41DAP/reference	0.84634	0.173
42DAP/reference	0.82627	0.055
43DAP/reference	1.06297	0.929
47DAP/reference	0.89312	0.09
52DAP/reference	0.78244	0.02
57DAP/reference	0.84672	0.278

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01321	1
17DAP/reference	1.00343	1
27DAP/reference	1.02838	0.834
39DAP/reference	0.92153	0.246
41DAP/reference	0.85642	0.237
42DAP/reference	0.92254	0.361
43DAP/reference	0.80092	0.095
47DAP/reference	0.89159	0.069
52DAP/reference	1.09347	0.724
57DAP/reference	0.92903	0.315

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.13056	0.966
26DAP/20DAP	0.95083	1
34DAP/26DAP	1.10036	0.819
51DAP/34DAP	1.22068	0.171
52DAP/51DAP	0.95116	1
53DAP/52DAP	0.96507	0.868
55DAP/53DAP	1.06812	0.938
57DAP/55DAP	0.97448	0.821
62DAP/57DAP	0.83836	0.088
68DAP/62DAP	0.83244	0.543
68DAP/14DAP	1.53973	0.487

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.8238	0.224

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.87832	0.491
Mature Green Tomato/Ripe Tomato	0.51737
Immature Eggplant/Mature Eggplant	1.35121	0.056
Ripe Pepper/Ripe Tomato	0.6418	0.293
Mature Eggplant/Ripe Tomato	0.65365	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.92708	0.638
1-1-2/M82	1.05506	1
12-2/M82	1.02841	1
12-4/M82	1.08746	1
1-3/M82	0.66547	0.378
2-1-1/M82	0.89182
2-1/M82	1.04574
2-6/M82	0.89565	0.501
3-2/M82	0.90255
4-1-1/M82	0.9845
4-1/M82	N/A	N/A
4-3-2/M82	1.06857	0.508
4-3/M82	0.69903	0.475
5-3/M82	1.11156	1
6-2/M82	0.63014	1
6-3/M82	0.99596	1
7-1/M82	N/A	N/A
7-2/M82	0.89534
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.74789	0.493
IL2-6/WTpooled	1.36942	0.659
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.54363	0.839
IL1-4/WTpooled	0.9757
WT/WTpooled	0.99232	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	1.13076	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95748	0.849
DC3000/delta hrp 6h	0.92292	0.95
DC3000/delta hrp 12h	0.98874	1
DC3000/delta hrp 24h	0.95393	0.642

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.70088	0.042
DC3000 delta B/DC3000 delta AB	0.80274	0.045

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.1568	0.196
Exp 36h	0.83268	0.406
Exp 60h	1.37934	0.221

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00172	1
Var 0h	1.13835	0.936
Var 12h I row2-row1	0.95685	0.77
Var 12h NI row2-row1	0.96409	0.82
Var 36h I row2-row1	0.92381	0.805
Var 36h NI row2-row1	0.92503	0.61
Var 60h I row2-row1	1.25886	0.562
Var 60h NI row2-row1	0.94416	0.516
Time course 0hI-0hNI	0.99068	1
Time course 12hI-12hNI	0.93251	0.464
Time course 36hI-36hNI	0.86723	0.22
Time course 60hI-60hNI	0.6999	0.026

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)	0.81898	0.32
transgenic ySAMdc/azygous control (breaker)	0.77213	0.131
transgenic ySAMdc/azygous control (red)	0.96473	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98829	0.227

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.93671	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.91651	1
Manapal/WT (break)	0.94787	1
Manapal/WT (red)	0.85041	0.181