Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.2.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87684	0.169
27DAP/17DAP	0.88245	0.717
39DAP/27DAP	0.79033	0.39
41DAP/39DAP	1.18025	0.276
42DAP/41DAP	0.94407	1
43DAP/42DAP	0.98719	0.925
47DAP/43DAP	0.93335	0.754
52DAP/47DAP	1.09004	0.821
57DAP/52DAP	1.06447	0.946

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01892	0.928
17DAP/reference	1.01539	0.442
27DAP/reference	0.97535	0.642
39DAP/reference	0.94073	0.188
41DAP/reference	0.8284	0.341
42DAP/reference	0.91482	0.009
43DAP/reference	1.02839	0.678
47DAP/reference	0.85427	0.006
52DAP/reference	0.98183	0.546
57DAP/reference	0.93603	0.138

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98131	0.732
27DAP/17DAP	1.02287	0.909
39DAP/27DAP	0.95494	0.45
41DAP/39DAP	0.92322	0.288
42DAP/41DAP	1.02364	0.904
43DAP/42DAP	1.00161	1
47DAP/43DAP	0.9549	0.554
52DAP/47DAP	1.00785	0.979
57DAP/52DAP	0.9593	0.564
57DAP/7DAP	0.99317	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09107	0.235
17DAP/reference	1.0459	0.134
27DAP/reference	0.9477	0.171
39DAP/reference	0.96902	0.17
41DAP/reference	0.94738	0.07
42DAP/reference	0.91563	0.019
43DAP/reference	0.93299	0.038
47DAP/reference	0.86381	0.05
52DAP/reference	0.95169	0.179
57DAP/reference	1.01422	0.907

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08091	0.083
17DAP/reference	1.10053	0.037
27DAP/reference	0.97994	0.501
39DAP/reference	0.92053	0.027
41DAP/reference	0.8752	0.047
42DAP/reference	0.84708	0.016
43DAP/reference	0.92776	0.217
47DAP/reference	0.84118	0.013
52DAP/reference	0.97308	0.22
57DAP/reference	0.98437	0.649

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10541	0.356
17DAP/reference	0.98929	0.709
27DAP/reference	0.97014	0.155
39DAP/reference	0.9388	0.023
41DAP/reference	0.92821	0.096
42DAP/reference	0.90106	0.032
43DAP/reference	0.91621	0.064
47DAP/reference	0.87063	0.054
52DAP/reference	0.79464	0.082
57DAP/reference	0.76394	0.025

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07674	0.966
26DAP/20DAP	0.86848	1
34DAP/26DAP	0.91263	0.387
51DAP/34DAP	1.2526	0.045
52DAP/51DAP	0.94249	1
53DAP/52DAP	0.98573	0.929
55DAP/53DAP	1.07706	0.719
57DAP/55DAP	1.10473	0.854
62DAP/57DAP	0.95558	0.28
68DAP/62DAP	0.99508	0.914
68DAP/14DAP	1.22261	0.469

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.8107	0.031

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.76402	0.223
Mature Green Tomato/Ripe Tomato	2.83272	0.058
Immature Eggplant/Mature Eggplant	0.39001	0.057
Ripe Pepper/Ripe Tomato	25.1061	0.258
Mature Eggplant/Ripe Tomato	7.98296	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.88071	0.605
1-1-2/M82	0.87741	0.958
12-2/M82	1.12999	1
12-4/M82	0.94823	1
1-3/M82	0.8579	0.378
2-1-1/M82	1.04872	1
2-1/M82	N/A	N/A
2-6/M82	1.04694	0.695
3-2/M82	1.00591
4-1-1/M82	1.08439	1
4-1/M82	0.9469	1
4-3-2/M82	0.8507	1
4-3/M82	0.89909	1
5-3/M82	0.98679	1
6-2/M82	1.02568	1
6-3/M82	0.957	1
7-1/M82	1.19769	0.598
7-2/M82	1.01097	1
9-3-2/M82	0.75795	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.7337	0.243
IL2-6/WTpooled	1.09425	0.788
IL7-5/WTpooled	0.94933	1
IL7-3/WTpooled	0.6372	0.298
IL12-4/WTpooled	0.83693	0.566
IL1-4/WTpooled	0.82973	0.457
WT/WTpooled	1.1031	0.957

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	0.74625	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93539	0.849
DC3000/delta hrp 6h	0.81843	0.95
DC3000/delta hrp 12h	1.00496	1
DC3000/delta hrp 24h	0.89036	0.363

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.61199	0.023
DC3000 delta B/DC3000 delta AB	0.70971	0.023

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.03323	1
Exp 36h	0.83341	0.449
Exp 60h	0.71319	0.251

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0013	1
Var 0h	0.85927	0.933
Var 12h I row2-row1	0.90052	0.514
Var 12h NI row2-row1	0.99011	1
Var 36h I row2-row1	0.93482	0.575
Var 36h NI row2-row1	1.26602	1
Var 60h I row2-row1	1.58854	1
Var 60h NI row2-row1	1.05288	0.904
Time course 0hI-0hNI	0.97773	0.892
Time course 12hI-12hNI	0.94234	0.377
Time course 36hI-36hNI	0.78801	0.023
Time course 60hI-60hNI	0.28996	0.006

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)	0.77412	0.286
transgenic ySAMdc/azygous control (breaker)	1.38564	0.248
transgenic ySAMdc/azygous control (red)	1.10901	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99289	0.418

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.28416	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.49784	0.086
Manapal/WT (break)	1.23993	0.381
Manapal/WT (red)	1.36841	0.413