Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.2.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.51454	0.106
27DAP/17DAP	1.03582	0.93
39DAP/27DAP	1.02131	0.876
41DAP/39DAP	0.91825	0.63
42DAP/41DAP	1.11554	0.931
43DAP/42DAP	1.313	0.378
47DAP/43DAP	0.77544	0.286
52DAP/47DAP	0.8537	0.612
57DAP/52DAP	1.23184	0.776

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78336	0.055
17DAP/reference	0.88323	0.298
27DAP/reference	1.08716	0.782
39DAP/reference	0.96813	0.624
41DAP/reference	0.72886	0.065
42DAP/reference	1.05665	0.398
43DAP/reference	1.15917	0.026
47DAP/reference	1.32202	0.002
52DAP/reference	1.55402	0.01
57DAP/reference	1.43875	0.016

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	3.53606	0.247
27DAP/17DAP	0.93673	0.887
39DAP/27DAP	1.73856
41DAP/39DAP	0.92984	0.945
42DAP/41DAP	9.7168
43DAP/42DAP	1.36471	0.699
47DAP/43DAP	1.00219	0.855
52DAP/47DAP	1.28783	0.933
57DAP/52DAP	1.35993	0.926
57DAP/7DAP	0.27663	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.36792	0.035
17DAP/reference	1.27259	0.045
27DAP/reference	1.43572	0.012
39DAP/reference	2.03895	0.005
41DAP/reference	1.43303	0.012
42DAP/reference	1.43746	0.076
43DAP/reference	1.40885	0.012
47DAP/reference	1.47892	0.018
52DAP/reference	1.35484	0.034
57DAP/reference	1.3977	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78553	0.013
17DAP/reference	0.8406	0.033
27DAP/reference	1.05252	0.961
39DAP/reference	1.12816	0.281
41DAP/reference	0.96643	0.307
42DAP/reference	0.83697	0.012
43DAP/reference	0.83092	0.082
47DAP/reference	0.80887	0.012
52DAP/reference	0.92074	0.055
57DAP/reference	0.88271	0.259

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97804	0.526
17DAP/reference	0.98972	0.739
27DAP/reference	1.19663	0.125
39DAP/reference	1.09514	0.254
41DAP/reference	1.1835	0.537
42DAP/reference	1.15821	0.391
43DAP/reference	1.30078	0.179
47DAP/reference	1.22962	0.196
52DAP/reference	1.48468	0.034
57DAP/reference	1.70655	0.011

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09872	0.966
26DAP/20DAP	4.08149	0.04
34DAP/26DAP	0.96537	0.954
51DAP/34DAP	1.01966	0.993
52DAP/51DAP	3.1844	0.182
53DAP/52DAP	0.96956	0.909
55DAP/53DAP	0.74852
57DAP/55DAP	1.47337	0.666
62DAP/57DAP	0.82389	0.466
68DAP/62DAP	1.68319	0.064
68DAP/14DAP	1.2338	0.762

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	3.32562

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.21692	1
Mature Green Tomato/Ripe Tomato	0.98736	0.774
Immature Eggplant/Mature Eggplant	1.12537	0.19
Ripe Pepper/Ripe Tomato	1.04335	1
Mature Eggplant/Ripe Tomato	0.90778	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91672	0.934
1-1-2/M82	1.01963	1
12-2/M82	0.93949	0.955
12-4/M82	0.8004	0.358
1-3/M82	1.45051	0.26
2-1-1/M82	1.06647	1
2-1/M82	0.98413
2-6/M82	1.15846	0.695
3-2/M82	1.21794	0.463
4-1-1/M82	1.20504	1
4-1/M82	N/A	N/A
4-3-2/M82	1.56552
4-3/M82	1.16475	1
5-3/M82	0.98303	1
6-2/M82	1.64025
6-3/M82	1.18243	1
7-1/M82	1.19857	0.87
7-2/M82	1.27122	0.291
9-3-2/M82	1.46319	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.58481	0.247
IL2-6/WTpooled	1.09338	0.659
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.97612	1
IL12-4/WTpooled	1.06013	0.839
IL1-4/WTpooled	0.97223
WT/WTpooled	1.02441	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01046	1
DC3000/delta hrp 6h	1.08153	0.95
DC3000/delta hrp 12h	0.83153	1
DC3000/delta hrp 24h	1.25097	0.043

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.85429	1
Exp 36h	0.9278	0.749
Exp 60h	0.97339	0.994

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	N/A	N/A
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)	1.03521	0.511
transgenic ySAMdc/azygous control (breaker)	1.0834	1
transgenic ySAMdc/azygous control (red)	1.0325	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.87753	0.14

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.91246	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.96364	1
Manapal/WT (break)	1.0292	1
Manapal/WT (red)	1.42642	0.142