Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.9.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98518	0.839
27DAP/17DAP	1.25163	0.822
39DAP/27DAP	1.2275	0.384
41DAP/39DAP	0.68987	0.175
42DAP/41DAP	1.15595	0.974
43DAP/42DAP	0.80588	0.697
47DAP/43DAP	0.76262	0.29
52DAP/47DAP	1.5938	0.421
57DAP/52DAP	1.37761	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05193	0.96
17DAP/reference	1.15921	0.047
27DAP/reference	0.93172	0.428
39DAP/reference	1.16834	0.036
41DAP/reference	1.11818	0.025
42DAP/reference	0.94384	0.182
43DAP/reference	1.03735	0.73
47DAP/reference	0.96449	0.366
52DAP/reference	0.8126	0.057
57DAP/reference	0.86071	0.039

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06663	0.812
27DAP/17DAP	1.05454	0.928
39DAP/27DAP	0.96692	0.754
41DAP/39DAP	0.71372	0.117
42DAP/41DAP	0.85696	0.384
43DAP/42DAP	1.27046	0.25
47DAP/43DAP	0.95444	0.857
52DAP/47DAP	0.97425	0.902
57DAP/52DAP	1.12165	0.444
57DAP/7DAP	0.64632	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75391	0.08
17DAP/reference	1.00918	0.693
27DAP/reference	0.94293	0.215
39DAP/reference	1.02572	1
41DAP/reference	1.13119	0.223
42DAP/reference	1.01278	0.791
43DAP/reference	1.03576	1
47DAP/reference	0.96247	0.504
52DAP/reference	1.05049	0.308
57DAP/reference	0.93663	0.353

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20557	0.151
17DAP/reference	1.16874	0.113
27DAP/reference	0.99515	0.642
39DAP/reference	0.98244	0.539
41DAP/reference	0.85127	0.078
42DAP/reference	0.76171	0.037
43DAP/reference	1.32008	0.045
47DAP/reference	0.93253	0.145
52DAP/reference	1.00425	0.713
57DAP/reference	1.38627	0.112

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92889	0.183
17DAP/reference	1.17924	0.186
27DAP/reference	1.18357	0.149
39DAP/reference	1.1501	0.053
41DAP/reference	1.23447	0.072
42DAP/reference	0.95693	0.552
43DAP/reference	0.92671	0.398
47DAP/reference	1.1006	0.405
52DAP/reference	1.41913	0.851
57DAP/reference	0.69973	0.023

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03249	1
26DAP/20DAP	1.40595	0.197
34DAP/26DAP	1.15543	0.819
51DAP/34DAP	1.0002	0.927
52DAP/51DAP	0.88726	1
53DAP/52DAP	1.41435	0.384
55DAP/53DAP	1.00653	0.951
57DAP/55DAP	1.24389	0.865
62DAP/57DAP	0.96158	0.994
68DAP/62DAP	0.61274	0.505
68DAP/14DAP	0.6505	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.23835	0.369

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.99822	1
Immature Eggplant/Mature Eggplant	1.5023
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.79201	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01233	1
1-1-2/M82	0.71565
12-2/M82	N/A	N/A
12-4/M82	1.35248	1
1-3/M82	0.6796	0.378
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.95138	1
3-2/M82	0.94273
4-1-1/M82	N/A	N/A
4-1/M82	1.4595
4-3-2/M82	N/A	N/A
4-3/M82	0.9588	1
5-3/M82	0.86725	0.49
6-2/M82	1.0328
6-3/M82	0.93453	1
7-1/M82	0.70197
7-2/M82	0.76363	0.796
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.89205	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.05483	1
IL12-4/WTpooled	1.17659	0.513
IL1-4/WTpooled	1.03727	1
WT/WTpooled	1.11137	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	1.11614	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03904	0.921
DC3000/delta hrp 6h	0.82573	0.95
DC3000/delta hrp 12h	0.96224	1
DC3000/delta hrp 24h	0.95217	0.662

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	N/A	N/A
Exp 36h	1.24656	0.489
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	1.06378	1
Var 0h	1.17885	0.98
Var 12h I row2-row1	1.26579	0.443
Var 12h NI row2-row1	1.07089	1
Var 36h I row2-row1	1.04783	0.298
Var 36h NI row2-row1	1.78612	1
Var 60h I row2-row1	0.94569	0.293
Var 60h NI row2-row1	0.83875	0.318
Time course 0hI-0hNI	0.91075	0.852
Time course 12hI-12hNI	1.06482	0.593
Time course 36hI-36hNI	1.12619	0.147
Time course 60hI-60hNI	1.18271	0.137

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)	1.09243	0.408
transgenic ySAMdc/azygous control (breaker)	1.04884	0.248
transgenic ySAMdc/azygous control (red)	0.98308	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9384	0.097

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.92718	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.84204	1
Manapal/WT (break)	1.10554	1
Manapal/WT (red)	0.96784	0.863