Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.9.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18941	0.498
27DAP/17DAP	0.81835	0.504
39DAP/27DAP	1.26657	0.75
41DAP/39DAP	0.94853	0.828
42DAP/41DAP	0.87231	1
43DAP/42DAP	1.5516	0.785
47DAP/43DAP	1.22231	0.769
52DAP/47DAP	1.34708	0.681
57DAP/52DAP	1.02631	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1345	0.735
17DAP/reference	1.08481	0.161
27DAP/reference	1.02846	1
39DAP/reference	1.02204	0.497
41DAP/reference	1.13242	0.365
42DAP/reference	0.88533	0.03
43DAP/reference	0.97831	0.691
47DAP/reference	0.8699	0.005
52DAP/reference	0.71808	0.015
57DAP/reference	0.80061	0.022

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06975	0.749
27DAP/17DAP	1.14141	0.735
39DAP/27DAP	1.19221	0.214
41DAP/39DAP	0.91106	0.781
42DAP/41DAP	1.04393	1
43DAP/42DAP	1.07171	0.382
47DAP/43DAP	1.01968	0.948
52DAP/47DAP	1.09204	0.816
57DAP/52DAP	0.98462	0.804
57DAP/7DAP	1.10066	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85552	0.061
17DAP/reference	0.90801	0.016
27DAP/reference	0.84668	0.028
39DAP/reference	0.76709	0.012
41DAP/reference	0.66473	0.019
42DAP/reference	0.57133	0.012
43DAP/reference	0.71489	0.035
47DAP/reference	0.84381	0.168
52DAP/reference	0.61951	0.02
57DAP/reference	0.77662	0.034

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15986	0.289
17DAP/reference	1.08284	0.437
27DAP/reference	0.94922	0.438
39DAP/reference	0.95573	0.404
41DAP/reference	0.84416	0.078
42DAP/reference	0.77511	0.016
43DAP/reference	1.17827	0.124
47DAP/reference	0.81495	0.023
52DAP/reference	1.04275	0.528
57DAP/reference	1.32017	0.083

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91337	0.068
17DAP/reference	0.96078	0.579
27DAP/reference	0.96402	0.416
39DAP/reference	0.87903	0.043
41DAP/reference	1.00633	1
42DAP/reference	0.67024	0.041
43DAP/reference	0.79167	0.12
47DAP/reference	0.86363	0.249
52DAP/reference	0.93953	0.518
57DAP/reference	0.47105	0.017

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03776	0.966
26DAP/20DAP	1.09344	0.974
34DAP/26DAP	0.88203	0.728
51DAP/34DAP	1.2872	0.056
52DAP/51DAP	1.06297	0.77
53DAP/52DAP	1.11146	0.678
55DAP/53DAP	1.17781	0.608
57DAP/55DAP	1.09171	0.955
62DAP/57DAP	1.03452	0.902
68DAP/62DAP	0.70271	0.144
68DAP/14DAP	0.69638	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.81594	0.079

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.14636
Immature Eggplant/Mature Eggplant	0.44779
Ripe Pepper/Ripe Tomato	1.94658
Mature Eggplant/Ripe Tomato	1.28787

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97573
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.89605	0.275
1-3/M82	N/A	N/A
2-1-1/M82	1.24423
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.04852	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.92171
7-2/M82	0.92204
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.78439	0.243
IL2-6/WTpooled	0.6902	0.383
IL7-5/WTpooled	0.95619	1
IL7-3/WTpooled	1.37845	0.362
IL12-4/WTpooled	1.15331	0.367
IL1-4/WTpooled	1.10322	1
WT/WTpooled	1.02172	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	1.08384	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0507	1
DC3000/delta hrp 6h	1.33526	1
DC3000/delta hrp 12h	1.083	1
DC3000/delta hrp 24h	1.30961	0.296

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.26686	0.384
DC3000 delta B/DC3000 delta AB	1.04779	0.55

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.93666	0.245
Exp 36h	1.08665	0.489
Exp 60h	1.16705	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0186	1
Var 0h	1.06374	1
Var 12h I row2-row1	0.89722	0.363
Var 12h NI row2-row1	0.95469	0.713
Var 36h I row2-row1	1.08793	0.489
Var 36h NI row2-row1	0.90568	0.706
Var 60h I row2-row1	0.98667	1
Var 60h NI row2-row1	0.96953	1
Time course 0hI-0hNI	1.00136	1
Time course 12hI-12hNI	1.03238	0.788
Time course 36hI-36hNI	1.20281	0.025
Time course 60hI-60hNI	1.32129	0.017

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)	0.98778	0.789
transgenic ySAMdc/azygous control (breaker)	1.31439	0.172
transgenic ySAMdc/azygous control (red)	0.99557	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00213	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.52636	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.289	0.14
Manapal/WT (break)	0.7776	0.333
Manapal/WT (red)	0.80542	0.184