Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.1.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02827	0.83
27DAP/17DAP	1.21778	0.842
39DAP/27DAP	0.95038	0.682
41DAP/39DAP	1.71711	0.522
42DAP/41DAP	0.80773	0.774
43DAP/42DAP	0.99105	0.932
47DAP/43DAP	0.88871	0.613
52DAP/47DAP	1.14924	0.821
57DAP/52DAP	0.93772	0.923

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90848	0.103
17DAP/reference	1.00015	1
27DAP/reference	0.97763	0.623
39DAP/reference	1.00335	0.941
41DAP/reference	0.98763	0.814
42DAP/reference	0.94915	0.218
43DAP/reference	0.96487	0.653
47DAP/reference	0.93499	0.224
52DAP/reference	0.9443	0.36
57DAP/reference	0.96306	0.415

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97777	0.663
27DAP/17DAP	0.99169	0.943
39DAP/27DAP	0.98111	0.87
41DAP/39DAP	1.22338	0.112
42DAP/41DAP	0.92105	0.407
43DAP/42DAP	1.0331	0.664
47DAP/43DAP	0.94445	0.606
52DAP/47DAP	1.02351	0.919
57DAP/52DAP	0.73425	0.047
57DAP/7DAP	0.90685	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88865	0.224
17DAP/reference	0.82617	0.025
27DAP/reference	0.75986	0.015
39DAP/reference	0.98332	0.552
41DAP/reference	0.96778	0.449
42DAP/reference	0.90502	0.144
43DAP/reference	0.78071	0.033
47DAP/reference	0.89479	0.293
52DAP/reference	0.79803	0.022
57DAP/reference	0.88155	0.041

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06233	0.823
17DAP/reference	1.14715	0.357
27DAP/reference	0.90707	0.15
39DAP/reference	0.84893	0.126
41DAP/reference	0.85017	0.11
42DAP/reference	1.06097	0.569
43DAP/reference	1.3491	0.188
47DAP/reference	1.08751	0.291
52DAP/reference	0.97538	0.576
57DAP/reference	1.10117	0.827

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8846	0.268
17DAP/reference	0.98291	0.681
27DAP/reference	0.79757	0.044
39DAP/reference	0.80154	0.043
41DAP/reference	0.82165	0.132
42DAP/reference	0.7955	0.036
43DAP/reference	0.81812	0.12
47DAP/reference	1.08268	0.562
52DAP/reference	0.88924	0.433
57DAP/reference	0.94445	0.273

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04103	0.966
26DAP/20DAP	0.80249	0.317
34DAP/26DAP	1.04688	0.542
51DAP/34DAP	1.55898	0.044
52DAP/51DAP	1.02333	0.925
53DAP/52DAP	1.2222	0.819
55DAP/53DAP	1.27246	0.46
57DAP/55DAP	1.16809	0.841
62DAP/57DAP	2.04207	0.678
68DAP/62DAP	1.0326	0.939
68DAP/14DAP	0.69095	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.65512	0.131

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.39776	0.113
Mature Green Tomato/Ripe Tomato	1.09569	0.577
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	2.75333	1
Mature Eggplant/Ripe Tomato	1.92682

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01073	1
1-1-2/M82	0.92998
12-2/M82	1.07625
12-4/M82	1.11377	1
1-3/M82	0.70766	0.378
2-1-1/M82	1.34953
2-1/M82	N/A	N/A
2-6/M82	0.96533	1
3-2/M82	1.27273
4-1-1/M82	0.84901	1
4-1/M82	0.9358	1
4-3-2/M82	0.82596
4-3/M82	0.6413
5-3/M82	0.97395	1
6-2/M82	0.79393	0.497
6-3/M82	1.46035
7-1/M82	1.07134
7-2/M82	0.78812	0.578
9-3-2/M82	0.91374	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.66939
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.05641
IL7-3/WTpooled	0.64144	0.418
IL12-4/WTpooled	0.74813	0.566
IL1-4/WTpooled	1.02748	1
WT/WTpooled	1.01831	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	1.01462	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01651	0.921
DC3000/delta hrp 6h	1.20833	1
DC3000/delta hrp 12h	1.01813	1
DC3000/delta hrp 24h	1.0938	0.158

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.66669	0.049
DC3000 delta B/DC3000 delta AB	1.06656	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99744	1
Exp 36h	0.8791	0.661
Exp 60h	0.88103	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98847	1
Var 0h	0.62936	0.933
Var 12h I row2-row1	0.93605	0.77
Var 12h NI row2-row1	1.24632	1
Var 36h I row2-row1	1.07078	1
Var 36h NI row2-row1	1.22559	1
Var 60h I row2-row1	1.12297	0.543
Var 60h NI row2-row1	0.97081	0.431
Time course 0hI-0hNI	1.10995	0.486
Time course 12hI-12hNI	0.99005	0.978
Time course 36hI-36hNI	1.01626	0.799
Time course 60hI-60hNI	1.6847	0.008

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)	0.94711	0.567
transgenic ySAMdc/azygous control (breaker)	1.43024	0.166
transgenic ySAMdc/azygous control (red)	1.01224	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01437	0.421

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.4334	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.27898	0.14
Manapal/WT (break)	0.71808	1
Manapal/WT (red)	0.8808	0.36