Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.11.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22965	0.498
27DAP/17DAP	1.06029	1
39DAP/27DAP	0.98357	0.7
41DAP/39DAP	1.06463	0.894
42DAP/41DAP	0.97289	1
43DAP/42DAP	0.99465	0.93
47DAP/43DAP	0.95984	0.835
52DAP/47DAP	0.84168	0.587
57DAP/52DAP	1.43923	0.918

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05656	0.735
17DAP/reference	1.05194	0.508
27DAP/reference	1.06135	0.58
39DAP/reference	1.18254	0.359
41DAP/reference	1.11142	0.451
42DAP/reference	0.95305	0.202
43DAP/reference	0.99346	0.84
47DAP/reference	0.88944	0.025
52DAP/reference	0.86726	0.044
57DAP/reference	0.93218	0.078

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91967	0.496
27DAP/17DAP	0.92178	0.782
39DAP/27DAP	1.05749	0.659
41DAP/39DAP	1.09388	0.849
42DAP/41DAP	0.92965	0.572
43DAP/42DAP	1.07642	0.699
47DAP/43DAP	1.15835	0.464
52DAP/47DAP	1.0934	0.799
57DAP/52DAP	1.65702	0.04
57DAP/7DAP	2.01336	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9549	0.361
17DAP/reference	0.88779	0.082
27DAP/reference	0.99434	0.656
39DAP/reference	0.77152	0.011
41DAP/reference	0.82374	0.037
42DAP/reference	0.74457	0.013
43DAP/reference	0.96548	0.385
47DAP/reference	0.96974	0.671
52DAP/reference	0.99876	0.802
57DAP/reference	0.84245	0.069

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06137	0.605
17DAP/reference	1.20479	0.056
27DAP/reference	0.991	0.642
39DAP/reference	0.98094	0.509
41DAP/reference	0.82491	0.145
42DAP/reference	0.92974	0.108
43DAP/reference	1.40385	0.185
47DAP/reference	0.96142	0.349
52DAP/reference	1.05746	0.702
57DAP/reference	1.03274	0.874

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81667	0.068
17DAP/reference	0.94176	0.381
27DAP/reference	1.09751	0.51
39DAP/reference	0.95635	0.328
41DAP/reference	0.90593	0.371
42DAP/reference	0.94387	0.445
43DAP/reference	0.87383	0.226
47DAP/reference	1.011	1
52DAP/reference	1.02413	0.952
57DAP/reference	0.9299	0.321

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.25297	0.966
26DAP/20DAP	0.80807	1
34DAP/26DAP	1.02643	1
51DAP/34DAP	1.10063	0.883
52DAP/51DAP	0.94406	1
53DAP/52DAP	1.44382	0.858
55DAP/53DAP	0.89453	0.282
57DAP/55DAP	1.01053	0.914
62DAP/57DAP	0.87076	0.162
68DAP/62DAP	1.03019	1
68DAP/14DAP	0.94884	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.92173	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.45259	0.019
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.59296
Mature Eggplant/Ripe Tomato	1.48451	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.92836
1-1-2/M82	0.57204
12-2/M82	N/A	N/A
12-4/M82	0.90965	1
1-3/M82	N/A	N/A
2-1-1/M82	1.01817
2-1/M82	N/A	N/A
2-6/M82	0.88479
3-2/M82	1.00023
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.97557
4-3/M82	1.1456
5-3/M82	0.91516	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.06204
7-2/M82	0.8191
9-3-2/M82	0.70896

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.96518	0.277
IL2-6/WTpooled	0.63421	0.348
IL7-5/WTpooled	1.0622	0.635
IL7-3/WTpooled	1.46633	0.362
IL12-4/WTpooled	1.22253	0.516
IL1-4/WTpooled	0.92349	0.699
WT/WTpooled	0.98242	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	1.46006	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0703	0.894
DC3000/delta hrp 6h	2.4721
DC3000/delta hrp 12h	0.84738	1
DC3000/delta hrp 24h	0.9572	0.725

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	0.78237	0.445

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
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	0.99207	1
Var 0h	1.06384	1
Var 12h I row2-row1	0.97528	0.39
Var 12h NI row2-row1	1.02739	1
Var 36h I row2-row1	1.19423	1
Var 36h NI row2-row1	0.73128	0.706
Var 60h I row2-row1	1.02011	0.543
Var 60h NI row2-row1	1.26743	0.904
Time course 0hI-0hNI	0.98374	0.961
Time course 12hI-12hNI	0.94857	0.628
Time course 36hI-36hNI	0.79931	0.028
Time course 60hI-60hNI	0.57219	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)	1.03033	0.798
transgenic ySAMdc/azygous control (breaker)	0.75551	0.15
transgenic ySAMdc/azygous control (red)	1.09528	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96341	0.14

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.92674	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.79503	1
Manapal/WT (break)	1.19654	1
Manapal/WT (red)	0.8837	0.503