Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.13.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94143	0.699
27DAP/17DAP	0.75498	0.433
39DAP/27DAP	0.76368	0.069
41DAP/39DAP	4.33276	0.642
42DAP/41DAP	0.79046	0.774
43DAP/42DAP	0.9877	0.91
47DAP/43DAP	1.15595	0.959
52DAP/47DAP	1.13609	0.93
57DAP/52DAP	1.12311	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9852	0.616
17DAP/reference	1.01248	1
27DAP/reference	0.98384	0.623
39DAP/reference	1.08545	0.524
41DAP/reference	0.96032	0.542
42DAP/reference	0.91883	0.035
43DAP/reference	0.88096	0.148
47DAP/reference	0.91632	0.027
52DAP/reference	0.8683	0.069
57DAP/reference	1.08065	0.101

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86086	0.194
27DAP/17DAP	0.98659	0.919
39DAP/27DAP	1.04288	0.793
41DAP/39DAP	1.06517	0.849
42DAP/41DAP	0.9615	0.693
43DAP/42DAP	1.05824	0.664
47DAP/43DAP	1.03716	0.853
52DAP/47DAP	0.90329	0.6
57DAP/52DAP	0.8905	0.399
57DAP/7DAP	1.32598	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98595	0.682
17DAP/reference	0.8737	0.039
27DAP/reference	0.99499	0.698
39DAP/reference	0.82775	0.02
41DAP/reference	0.75928	0.07
42DAP/reference	0.89511	0.13
43DAP/reference	0.76797	0.017
47DAP/reference	0.86183	0.293
52DAP/reference	0.81285	0.038
57DAP/reference	0.65911	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19364	0.11
17DAP/reference	1.04113	0.756
27DAP/reference	1.00955	0.79
39DAP/reference	0.91464	0.289
41DAP/reference	0.9117	0.205
42DAP/reference	1.12084	0.317
43DAP/reference	1.41693	0.081
47DAP/reference	1.06953	0.426
52DAP/reference	1.18985	0.498
57DAP/reference	1.19453	0.277

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85355	0.087
17DAP/reference	1.01645	1
27DAP/reference	1.16784	0.029
39DAP/reference	1.01817	0.836
41DAP/reference	1.18391	0.486
42DAP/reference	1.03341	0.775
43DAP/reference	0.87371	0.125
47DAP/reference	1.15271	0.046
52DAP/reference	1.04312	0.714
57DAP/reference	1.05266	0.694

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11927	0.966
26DAP/20DAP	1.01793	1
34DAP/26DAP	1.05922	0.819
51DAP/34DAP	0.85582	0.095
52DAP/51DAP	0.99325	1
53DAP/52DAP	1.17482	0.662
55DAP/53DAP	1.04301	1
57DAP/55DAP	0.9945	0.851
62DAP/57DAP	1.7678	0.678
68DAP/62DAP	1.05941	0.914
68DAP/14DAP	1.16269	0.636

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.60803	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.73871	0.223
Mature Green Tomato/Ripe Tomato	0.43318
Immature Eggplant/Mature Eggplant	1.0085	0.683
Ripe Pepper/Ripe Tomato	12.0545	0.258
Mature Eggplant/Ripe Tomato	2.43058	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00708	1
1-1-2/M82	0.97875	1
12-2/M82	1.23145
12-4/M82	1.05208	1
1-3/M82	0.8767	0.501
2-1-1/M82	0.71776
2-1/M82	N/A	N/A
2-6/M82	0.86048	0.501
3-2/M82	0.78573
4-1-1/M82	1.07622	1
4-1/M82	1.63613
4-3-2/M82	0.68509
4-3/M82	0.85829	1
5-3/M82	1.03952	1
6-2/M82	N/A	N/A
6-3/M82	1.13361
7-1/M82	1.01886	1
7-2/M82	0.92884	0.881
9-3-2/M82	0.72066	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.0382	0.788
IL7-5/WTpooled	0.79672
IL7-3/WTpooled	0.97535	1
IL12-4/WTpooled	0.80872	0.71
IL1-4/WTpooled	0.94885	0.834
WT/WTpooled	1.08762	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	1.01142	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96246	1
DC3000/delta hrp 6h	0.93267	0.95
DC3000/delta hrp 12h	1.11688	1
DC3000/delta hrp 24h	0.96194	0.654

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	1.06848	0.625

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.94138	1
Exp 36h	1.1659	1
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98081	1
Var 0h	1.24359	0.98
Var 12h I row2-row1	1.27183	0.235
Var 12h NI row2-row1	0.79121	0.713
Var 36h I row2-row1	0.89024	0.805
Var 36h NI row2-row1	0.91875	0.61
Var 60h I row2-row1	1.28734	0.562
Var 60h NI row2-row1	1.06885	1
Time course 0hI-0hNI	1.02067	0.867
Time course 12hI-12hNI	1.0071	0.876
Time course 36hI-36hNI	0.97997	0.58
Time course 60hI-60hNI	1.25523	0.01

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)	1.12148	0.292
transgenic ySAMdc/azygous control (breaker)	1.51478	0.162
transgenic ySAMdc/azygous control (red)	1.17256	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01149	0.656

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.78554	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.74686	1
Manapal/WT (break)	0.91812	0.333
Manapal/WT (red)	1.49759	0.126