Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.2.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.77362	0.123
27DAP/17DAP	0.98234	0.978
39DAP/27DAP	1.48787	0.181
41DAP/39DAP	0.69929	0.102
42DAP/41DAP	1.06202	0.978
43DAP/42DAP	1.01826	0.937
47DAP/43DAP	0.673	0.133
52DAP/47DAP	1.11754	0.918
57DAP/52DAP	1.30025	0.616

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99963	0.756
17DAP/reference	0.98998	0.777
27DAP/reference	0.96278	0.484
39DAP/reference	0.97251	0.663
41DAP/reference	0.99788	1
42DAP/reference	1.01252	1
43DAP/reference	1.08856	0.064
47DAP/reference	0.96744	0.3
52DAP/reference	0.87928	0.05
57DAP/reference	1.01129	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91227	0.26
27DAP/17DAP	1.17989	0.295
39DAP/27DAP	0.92969	0.388
41DAP/39DAP	1.21392	0.773
42DAP/41DAP	1.24699	0.257
43DAP/42DAP	0.9248	0.415
47DAP/43DAP	0.98067	0.902
52DAP/47DAP	0.75975	0.134
57DAP/52DAP	1.00252	0.892
57DAP/7DAP	0.89679	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.87577	0.027
17DAP/reference	1.53896	0.011
27DAP/reference	1.40677	0.012
39DAP/reference	1.54731	0.009
41DAP/reference	1.36602	0.052
42DAP/reference	1.46332	0.03
43DAP/reference	1.24415	0.032
47DAP/reference	1.18653	0.124
52DAP/reference	1.41254	0.019
57DAP/reference	1.39225	0.027

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1487	0.355
17DAP/reference	1.14458	0.139
27DAP/reference	1.28758	0.05
39DAP/reference	1.19776	0.355
41DAP/reference	1.02971	1
42DAP/reference	1.04155	1
43DAP/reference	1.12448	0.598
47DAP/reference	1.20138	0.133
52DAP/reference	0.94048	0.239
57DAP/reference	1.02115	0.874

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.63036	0.015
17DAP/reference	1.08462	0.792
27DAP/reference	1.1669	0.061
39DAP/reference	1.37362	0.018
41DAP/reference	1.2323	0.072
42DAP/reference	1.20629	0.209
43DAP/reference	1.34778	0.031
47DAP/reference	0.88254	0.02
52DAP/reference	1.42469	0.051
57DAP/reference	1.10051	0.436

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98264	1
26DAP/20DAP	2.34968	0.117
34DAP/26DAP	0.97654	0.98
51DAP/34DAP	0.82831	0.158
52DAP/51DAP	0.79791	0.151
53DAP/52DAP	1.38106	0.204
55DAP/53DAP	0.65843	0.048
57DAP/55DAP	1.67158	0.249
62DAP/57DAP	1.60315	0.678
68DAP/62DAP	0.93199	0.429
68DAP/14DAP	1.05584	0.958

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.88206	0.015

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.93168	0.563
Mature Green Tomato/Ripe Tomato	1.88027	0.03
Immature Eggplant/Mature Eggplant	1.32749	0.078
Ripe Pepper/Ripe Tomato	2.27509	0.233
Mature Eggplant/Ripe Tomato	1.31362	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.90479	0.616
1-1-2/M82	1.24445	1
12-2/M82	0.83703	0.678
12-4/M82	0.91575	1
1-3/M82	1.9088	0.26
2-1-1/M82	1.01399	1
2-1/M82	1.5847	1
2-6/M82	1.176	0.594
3-2/M82	0.96559	0.752
4-1-1/M82	1.04233	1
4-1/M82	0.91513	1
4-3-2/M82	1.71289	0.284
4-3/M82	1.50453	0.268
5-3/M82	1.34616	0.426
6-2/M82	1.2192	1
6-3/M82	1.05841	1
7-1/M82	0.875	0.803
7-2/M82	1.32487	0.302
9-3-2/M82	1.52267	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.0382	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.82623	0.294
IL12-4/WTpooled	1.03621	0.646
IL1-4/WTpooled	0.82058	0.476
WT/WTpooled	1.06819	0.785

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	1.03506	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.13728	0.715
DC3000/delta hrp 6h	0.98413	0.95
DC3000/delta hrp 12h	1.01442	1
DC3000/delta hrp 24h	1.13959	0.232

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.15854	0.29
DC3000 delta B/DC3000 delta AB	1.29423	0.209

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.03926	1
Exp 36h	1.14511	1
Exp 60h	1.18478	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01304	1
Var 0h	0.85174	1
Var 12h I row2-row1	1.0452	1
Var 12h NI row2-row1	1.27398	1
Var 36h I row2-row1	1.29906	0.368
Var 36h NI row2-row1	0.84178	0.61
Var 60h I row2-row1	0.93391
Var 60h NI row2-row1	1.05435	1
Time course 0hI-0hNI	0.90911	0.401
Time course 12hI-12hNI	1.02462	0.849
Time course 36hI-36hNI	1.53506	0.028
Time course 60hI-60hNI	1.61241	0.029

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)	0.9477	0.428
transgenic ySAMdc/azygous control (breaker)	1.51959	0.248
transgenic ySAMdc/azygous control (red)	1.30509	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.09489	0.11

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.98479	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.93226	1
Manapal/WT (break)	1.07176	1
Manapal/WT (red)	1.10914	1