Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.12.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.57663	0.014
27DAP/17DAP	0.84109	0.589
39DAP/27DAP	1.22739	0.658
41DAP/39DAP	0.76387	0.231
42DAP/41DAP	0.98556	1
43DAP/42DAP	1.01915	1
47DAP/43DAP	0.67097	0.122
52DAP/47DAP	1.27278	0.588
57DAP/52DAP	1.03295	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12727	0.055
17DAP/reference	1.00731	0.813
27DAP/reference	0.93158	0.109
39DAP/reference	0.9864	0.762
41DAP/reference	0.96322	0.542
42DAP/reference	0.94864	0.091
43DAP/reference	0.9343	0.073
47DAP/reference	0.92023	0.023
52DAP/reference	0.96834	0.405
57DAP/reference	0.89422	0.031

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83595	0.065
27DAP/17DAP	1.03104	0.885
39DAP/27DAP	0.89501	0.243
41DAP/39DAP	1.02482	1
42DAP/41DAP	0.98214	0.776
43DAP/42DAP	0.97086	0.538
47DAP/43DAP	0.99561	0.99
52DAP/47DAP	0.86383	0.426
57DAP/52DAP	0.93563	0.605
57DAP/7DAP	0.74183	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.86933	0.033
17DAP/reference	1.94081	0.007
27DAP/reference	1.37413	0.015
39DAP/reference	1.15082	0.073
41DAP/reference	1.43838	0.017
42DAP/reference	1.31666	0.024
43DAP/reference	1.13216	0.118
47DAP/reference	1.05306	0.582
52DAP/reference	1.06396	0.563
57DAP/reference	0.99456	0.629

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09043	0.289
17DAP/reference	1.07025	0.203
27DAP/reference	1.02506	0.726
39DAP/reference	0.88732	0.01
41DAP/reference	0.99448	0.601
42DAP/reference	0.98714	0.594
43DAP/reference	0.839	0.098
47DAP/reference	0.92823	0.178
52DAP/reference	0.86523	0.003
57DAP/reference	0.9073	0.073

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.08864	0.025
17DAP/reference	1.36491	0.431
27DAP/reference	1.42686	0.03
39DAP/reference	1.45587	0.016
41DAP/reference	1.10099	0.174
42DAP/reference	1.01842	1
43DAP/reference	1.16633	0.089
47DAP/reference	0.81427	0.019
52DAP/reference	0.90234	0.172
57DAP/reference	0.9237	0.273

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01231	1
26DAP/20DAP	1.88317	0.099
34DAP/26DAP	0.65867	0.086
51DAP/34DAP	0.85294	0.22
52DAP/51DAP	1.02643	0.776
53DAP/52DAP	1.0261	0.845
55DAP/53DAP	0.91589	0.293
57DAP/55DAP	0.98369	0.888
62DAP/57DAP	0.98669	1
68DAP/62DAP	1.25197	0.682
68DAP/14DAP	0.9712	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.4188	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.19974	0.058
Mature Green Tomato/Ripe Tomato	2.07735	0.034
Immature Eggplant/Mature Eggplant	0.96162	0.545
Ripe Pepper/Ripe Tomato	1.4758	0.258
Mature Eggplant/Ripe Tomato	2.87787	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01752	1
1-1-2/M82	0.98987	1
12-2/M82	0.92392	0.955
12-4/M82	0.95771	0.619
1-3/M82	1.21536	0.248
2-1-1/M82	0.92193
2-1/M82	0.92624
2-6/M82	1.07108	0.594
3-2/M82	0.981	1
4-1-1/M82	1.12518	1
4-1/M82	1.2733	0.287
4-3-2/M82	1.18064	0.508
4-3/M82	1.30966	1
5-3/M82	1.19643	1
6-2/M82	N/A	N/A
6-3/M82	0.97008	1
7-1/M82	1.24442	0.87
7-2/M82	1.21259	1
9-3-2/M82	0.97554	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.70143	1
IL7-5/WTpooled	0.78052
IL7-3/WTpooled	1.48104	1
IL12-4/WTpooled	1.20999	0.595
IL1-4/WTpooled	0.8606	0.699
WT/WTpooled	0.97065	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	1.08536	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.964	1
DC3000/delta hrp 6h	1.08415	1
DC3000/delta hrp 12h	1.12395	1
DC3000/delta hrp 24h	1.15572	0.502

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.15085	0.087
DC3000 delta B/DC3000 delta AB	1.22093	0.183

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.24102	1
Exp 36h	1.1252	1
Exp 60h	1.20183	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01553	1
Var 0h	0.74308	1
Var 12h I row2-row1	0.94016	0.705
Var 12h NI row2-row1	1.12408	0.235
Var 36h I row2-row1	1.14022	0.908
Var 36h NI row2-row1	0.92931	0.329
Var 60h I row2-row1	0.95514	0.292
Var 60h NI row2-row1	0.82717	0.866
Time course 0hI-0hNI	1.16489	0.63
Time course 12hI-12hNI	1.05189	0.741
Time course 36hI-36hNI	1.20218	0.056
Time course 60hI-60hNI	1.39897	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)	1.10901	0.287
transgenic ySAMdc/azygous control (breaker)	1.19029	1
transgenic ySAMdc/azygous control (red)	1.15176	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0702	0.301

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.92396	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.24853	0.105
Manapal/WT (break)	0.92	1
Manapal/WT (red)	0.95305	0.424