Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.9.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89884	0.511
27DAP/17DAP	1.04354	0.973
39DAP/27DAP	1.27746	0.285
41DAP/39DAP	1.00819	0.939
42DAP/41DAP	0.91634	1
43DAP/42DAP	0.98137	0.925
47DAP/43DAP	1.39326	0.576
52DAP/47DAP	1.20502	0.787
57DAP/52DAP	1.18071	0.784

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09669	0.241
17DAP/reference	1.11516	0.018
27DAP/reference	0.96526	0.484
39DAP/reference	1.01076	0.771
41DAP/reference	1.02806	0.963
42DAP/reference	0.86132	0.012
43DAP/reference	1.03207	0.758
47DAP/reference	0.88532	0.035
52DAP/reference	0.74899	0.037
57DAP/reference	0.7428	0.034

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90729	0.402
27DAP/17DAP	1.0988	0.55
39DAP/27DAP	1.14815	0.285
41DAP/39DAP	0.92697	0.412
42DAP/41DAP	1.04848	0.687
43DAP/42DAP	1.05964	0.351
47DAP/43DAP	0.99537	0.985
52DAP/47DAP	0.91801	0.546
57DAP/52DAP	0.97897	0.705
57DAP/7DAP	1.05387	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.70583	0.095
17DAP/reference	1.21657	0.147
27DAP/reference	0.91881	0.264
39DAP/reference	1.55157	0.007
41DAP/reference	1.3912	0.045
42DAP/reference	1.23976	0.174
43DAP/reference	0.95045	0.368
47DAP/reference	0.84282	0.222
52DAP/reference	0.71223	0.019
57DAP/reference	0.62869	0.025

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.4165	0.36
17DAP/reference	1.00274	0.805
27DAP/reference	0.84603	0.087
39DAP/reference	0.88426	0.156
41DAP/reference	0.83583	0.049
42DAP/reference	0.7789	0.014
43DAP/reference	0.96226	0.494
47DAP/reference	0.91875	0.083
52DAP/reference	0.93945	0.259
57DAP/reference	1.13483	0.363

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	3.17293	0.017
17DAP/reference	0.98825	0.763
27DAP/reference	1.13191	0.216
39DAP/reference	1.13183	0.157
41DAP/reference	0.79794	0.031
42DAP/reference	0.90341	0.287
43DAP/reference	0.67633	0.027
47DAP/reference	0.94008	0.286
52DAP/reference	1.32888	0.22
57DAP/reference	0.80477	0.109

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.17838	0.966
26DAP/20DAP	1.13733	0.567
34DAP/26DAP	0.94409	0.803
51DAP/34DAP	0.94161	0.631
52DAP/51DAP	0.96481	1
53DAP/52DAP	0.93073	0.723
55DAP/53DAP	1.03389	0.976
57DAP/55DAP	1.00831	1
62DAP/57DAP	1.2695	0.35
68DAP/62DAP	0.7673	0.055
68DAP/14DAP	0.76157	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.41112	0.017

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.07487	0.059
Mature Green Tomato/Ripe Tomato	1.53947	0.363
Immature Eggplant/Mature Eggplant	0.48942	0.117
Ripe Pepper/Ripe Tomato	1.09345	1
Mature Eggplant/Ripe Tomato	0.81281	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.6081
1-1-2/M82	1.04042	1
12-2/M82	0.98184
12-4/M82	0.55722	0.33
1-3/M82	1.04372
2-1-1/M82	0.71237	0.784
2-1/M82	N/A	N/A
2-6/M82	0.44581	0.501
3-2/M82	0.85301	0.44
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.56962
4-3/M82	0.68602
5-3/M82	1.50406	0.496
6-2/M82	0.56038
6-3/M82	1.46719	1
7-1/M82	1.09172	1
7-2/M82	1.42978	0.385
9-3-2/M82	0.94191	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.13448	0.277
IL2-6/WTpooled	0.8247	1
IL7-5/WTpooled	0.93771	1
IL7-3/WTpooled	0.9076	1
IL12-4/WTpooled	0.96686	1
IL1-4/WTpooled	0.96484	0.834
WT/WTpooled	0.97893	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	1.12992	0.167

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.35338	0.774
DC3000/delta hrp 6h	0.88775	0.95
DC3000/delta hrp 12h	1.10546	1
DC3000/delta hrp 24h	1.54054	0.049

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.03397
DC3000 delta B/DC3000 delta AB	1.22216	0.272

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.93414	1
Exp 36h	1.51378	0.693
Exp 60h	1.07626	0.227

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

hybridization	ratio	FDR (corrected p value)
self-self	1.09553	1
Var 0h	0.97423	1
Var 12h I row2-row1	1.40409	0.443
Var 12h NI row2-row1	0.93066	0.82
Var 36h I row2-row1	1.21974	0.339
Var 36h NI row2-row1	0.82182	0.61
Var 60h I row2-row1	1.16136	0.562
Var 60h NI row2-row1	0.99431	1
Time course 0hI-0hNI	0.95056	0.734
Time course 12hI-12hNI	1.10749	0.097
Time course 36hI-36hNI	1.66893	0.005
Time course 60hI-60hNI	1.38068	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)	1.15893	0.372
transgenic ySAMdc/azygous control (breaker)	2.00418	0.248
transgenic ySAMdc/azygous control (red)	1.26844	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97431	0.107

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.80483	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.138	0.105
Manapal/WT (break)	1.60102	0.14
Manapal/WT (red)	N/A	N/A