Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.9.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12577	0.697
27DAP/17DAP	0.67186	0.048
39DAP/27DAP	0.85709	0.41
41DAP/39DAP	0.70348	0.103
42DAP/41DAP	0.94991	1
43DAP/42DAP	1.37692	0.26
47DAP/43DAP	0.73858	0.245
52DAP/47DAP	0.82374	0.53
57DAP/52DAP	0.88918	0.827

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05627	0.544
17DAP/reference	1.12094	0.33
27DAP/reference	1.05598	0.66
39DAP/reference	1.03372	1
41DAP/reference	1.21129	0.102
42DAP/reference	1.01949	0.707
43DAP/reference	0.96703	0.631
47DAP/reference	0.85307	0.046
52DAP/reference	0.6184	0.023
57DAP/reference	0.72752	0.019

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.27432	0.062
27DAP/17DAP	0.82955	0.295
39DAP/27DAP	0.61371	0.035
41DAP/39DAP	1.26535	0.124
42DAP/41DAP	0.92113	0.469
43DAP/42DAP	0.52424	0.022
47DAP/43DAP	0.80086	0.039
52DAP/47DAP	1.26902	0.467
57DAP/52DAP	0.93126	0.632
57DAP/7DAP	0.91169	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.10228	0.027
17DAP/reference	1.59808	0.006
27DAP/reference	1.21725	0.041
39DAP/reference	1.06301	0.411
41DAP/reference	1.02731	1
42DAP/reference	1.17401	0.03
43DAP/reference	1.1578	0.14
47DAP/reference	1.05158	0.745
52DAP/reference	1.03843	1
57DAP/reference	1.14026	0.158

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11499	0.501
17DAP/reference	0.89507	0.26
27DAP/reference	0.85606	0.079
39DAP/reference	0.72939	0.01
41DAP/reference	0.78063	0.019
42DAP/reference	0.76022	0.011
43DAP/reference	0.80778	0.051
47DAP/reference	0.80802	0.013
52DAP/reference	0.59235	0.005
57DAP/reference	0.72418	0.01

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.99621	0.015
17DAP/reference	1.51734	0.126
27DAP/reference	1.25652	0.115
39DAP/reference	1.30771	0.019
41DAP/reference	0.98635	0.618
42DAP/reference	0.97085	0.671
43DAP/reference	1.14202	0.32
47DAP/reference	1.36025	0.007
52DAP/reference	1.21801	0.284
57DAP/reference	1.26324	0.077

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0276	1
26DAP/20DAP	1.03412	1
34DAP/26DAP	1.03511	1
51DAP/34DAP	1.32591	0.143
52DAP/51DAP	0.85591	1
53DAP/52DAP	0.91946	0.703
55DAP/53DAP	0.8017	0.336
57DAP/55DAP	1.12379	0.947
62DAP/57DAP	0.7952	0.088
68DAP/62DAP	0.71957	0.055
68DAP/14DAP	0.5194	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.52605	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.97046	0.068
Mature Green Tomato/Ripe Tomato	5.58257	0.015
Immature Eggplant/Mature Eggplant	0.50225	0.062
Ripe Pepper/Ripe Tomato	4.77962	0.236
Mature Eggplant/Ripe Tomato	2.77893	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.39312	0.877
1-1-2/M82	2.51301	1
12-2/M82	0.41822	0.528
12-4/M82	1.26312	1
1-3/M82	3.01712	0.248
2-1-1/M82	1.46713	1
2-1/M82	0.57413	0.322
2-6/M82	N/A	N/A
3-2/M82	0.7942	0.307
4-1-1/M82	0.72753
4-1/M82	1.26616	1
4-3-2/M82	2.69952
4-3/M82	1.88236
5-3/M82	1.13774	1
6-2/M82	N/A	N/A
6-3/M82	0.46241
7-1/M82	0.62536	0.452
7-2/M82	2.40858
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.37431	0.277
IL2-6/WTpooled	0.887	0.473
IL7-5/WTpooled	0.28143	1
IL7-3/WTpooled	1.05428	1
IL12-4/WTpooled	0.89526	1
IL1-4/WTpooled	0.70633	0.562
WT/WTpooled	1.0183	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	1.0205	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97731	1
DC3000/delta hrp 6h	0.97928	0.95
DC3000/delta hrp 12h	1.12792	1
DC3000/delta hrp 24h	0.77649	0.178

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.634	0.026
DC3000 delta B/DC3000 delta AB	0.62903	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.97184	1
Exp 36h	0.75155	0.434
Exp 60h	0.70706	0.249

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0315	1
Var 0h	1.01682	1
Var 12h I row2-row1	0.82077	0.357
Var 12h NI row2-row1	0.94332	0.82
Var 36h I row2-row1	1.0092	1
Var 36h NI row2-row1	1.23559	1
Var 60h I row2-row1	1.42472	0.562
Var 60h NI row2-row1	1.1256	0.904
Time course 0hI-0hNI	0.96973	0.858
Time course 12hI-12hNI	1.10951	0.445
Time course 36hI-36hNI	1.00109	0.753
Time course 60hI-60hNI	0.1254	0.005

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)	1.01827	0.921
transgenic ySAMdc/azygous control (breaker)	0.95469	0.49
transgenic ySAMdc/azygous control (red)	1.84358	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.87253	0.214

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.87422	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	4.20774	0.086
Manapal/WT (break)	3.87485	0.14
Manapal/WT (red)	5.12922	0.134