Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-1.4.19.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02497	0.713
27DAP/17DAP	0.90102	0.749
39DAP/27DAP	1.01885	0.82
41DAP/39DAP	1.54898	0.624
42DAP/41DAP	0.8866	1
43DAP/42DAP	1.54873	0.375
47DAP/43DAP	1.15544	0.965
52DAP/47DAP	1.27378	0.953
57DAP/52DAP	1.17147	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80034	0.025
17DAP/reference	1.02617	0.653
27DAP/reference	1.03385	0.587
39DAP/reference	0.96386	0.554
41DAP/reference	0.96965	0.667
42DAP/reference	0.88744	0.008
43DAP/reference	1.01045	0.982
47DAP/reference	0.96286	0.322
52DAP/reference	0.86907	0.089
57DAP/reference	0.84033	0.091

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22241	0.086
27DAP/17DAP	0.89713	0.508
39DAP/27DAP	1.3343	0.096
41DAP/39DAP	0.99482	1
42DAP/41DAP	0.99093	0.845
43DAP/42DAP	1.25684	0.086
47DAP/43DAP	0.96795	0.774
52DAP/47DAP	1.40615	0.224
57DAP/52DAP	1.44393	0.106
57DAP/7DAP	1.41453	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82838	0.146
17DAP/reference	0.84211	0.072
27DAP/reference	0.85385	0.062
39DAP/reference	0.94417	0.307
41DAP/reference	0.8271	0.031
42DAP/reference	0.87488	0.222
43DAP/reference	0.87586	0.132
47DAP/reference	0.87949	0.222
52DAP/reference	0.72875	0.022
57DAP/reference	0.73277	0.069

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94788	0.564
17DAP/reference	0.78674	0.016
27DAP/reference	0.80786	0.038
39DAP/reference	0.7777	0.028
41DAP/reference	0.90019	0.031
42DAP/reference	0.84287	0.121
43DAP/reference	0.80553	0.019
47DAP/reference	0.88718	0.014
52DAP/reference	0.78536	0.005
57DAP/reference	0.90998	0.361

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98965	0.607
17DAP/reference	0.85873	0.243
27DAP/reference	0.91585	0.102
39DAP/reference	0.85866	0.04
41DAP/reference	0.75114	0.018
42DAP/reference	0.7178	0.019
43DAP/reference	0.70626	0.021
47DAP/reference	0.95773	0.421
52DAP/reference	0.78509	0.193
57DAP/reference	0.8527	0.107

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01848	1
26DAP/20DAP	2.02788	0.098
34DAP/26DAP	1.54223	0.154
51DAP/34DAP	6.91174	0.019
52DAP/51DAP	0.72103	1
53DAP/52DAP	2.34995	0.029
55DAP/53DAP	0.96881	0.807
57DAP/55DAP	1.48481	0.231
62DAP/57DAP	0.71014	0.088
68DAP/62DAP	1.56111	0.113
68DAP/14DAP	10.5627	0.016

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.07317	0.018

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.16142	0.054
Mature Green Tomato/Ripe Tomato	0.48433	N/A
Immature Eggplant/Mature Eggplant	0.82353	0.254
Ripe Pepper/Ripe Tomato	10.5935	0.256
Mature Eggplant/Ripe Tomato	1.70256	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99387	N/A
1-1-2/M82	1.0026	1
12-2/M82	N/A	N/A
12-4/M82	0.97379	1
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	0.82224	N/A
2-6/M82	0.91688	1
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	1.144	1
5-3/M82	0.81802	1
6-2/M82	N/A	N/A
6-3/M82	0.7865	N/A
7-1/M82	N/A	N/A
7-2/M82	0.8341	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.08237	0.365
IL2-6/WTpooled	0.77939	0.473
IL7-5/WTpooled	1.27084	0.792
IL7-3/WTpooled	1.27566	0.362
IL12-4/WTpooled	1.17707	0.839
IL1-4/WTpooled	1.00668	1
WT/WTpooled	0.98423	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	1.04056	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06668	0.921
DC3000/delta hrp 6h	0.76493	0.95
DC3000/delta hrp 12h	1.06093	1
DC3000/delta hrp 24h	0.87659	0.126

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.11319	0.27
DC3000 delta B/DC3000 delta AB	1.24379	0.296

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.21551	1
Exp 36h	0.9712	0.943
Exp 60h	1.26101	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05011	1
Var 0h	0.87227	0.933
Var 12h I row2-row1	1.03305	0.692
Var 12h NI row2-row1	1.17529	0.649
Var 36h I row2-row1	1.03577	1
Var 36h NI row2-row1	1.0126	1
Var 60h I row2-row1	0.87189	0.285
Var 60h NI row2-row1	0.97701	1
Time course 0hI-0hNI	1.05023	0.719
Time course 12hI-12hNI	1.01295	0.868
Time course 36hI-36hNI	0.89761	0.166
Time course 60hI-60hNI	1.23447	0.009

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)	1.06809	0.654
transgenic ySAMdc/azygous control (breaker)	0.87683	0.251
transgenic ySAMdc/azygous control (red)	1.14382	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02777	0.587

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.05527	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.75255	1
Manapal/WT (break)	0.9801	1
Manapal/WT (red)	0.80913	0.229