Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.2.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95522	0.713
27DAP/17DAP	1.00819	1
39DAP/27DAP	1.12019	1
41DAP/39DAP	1.08679	0.844
42DAP/41DAP	1.08056	0.954
43DAP/42DAP	0.82661	0.7
47DAP/43DAP	0.88073	0.595
52DAP/47DAP	1.06551	0.95
57DAP/52DAP	0.93878	0.923

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97258	0.489
17DAP/reference	1.07809	0.239
27DAP/reference	1.07109	0.365
39DAP/reference	1.10548	0.089
41DAP/reference	1.12933	0.036
42DAP/reference	0.93085	0.107
43DAP/reference	1.05469	0.495
47DAP/reference	0.96931	0.345
52DAP/reference	0.99728	0.709
57DAP/reference	0.97842	0.456

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15374	0.258
27DAP/17DAP	1.08507	0.768
39DAP/27DAP	0.86057	0.311
41DAP/39DAP	0.89159	0.586
42DAP/41DAP	1.11954	0.251
43DAP/42DAP	1.01329	1
47DAP/43DAP	1.13869	0.664
52DAP/47DAP	1.07896	0.789
57DAP/52DAP	1.14074	0.504
57DAP/7DAP	0.8602	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81259	0.067
17DAP/reference	1.03958	0.896
27DAP/reference	1.08127	0.301
39DAP/reference	1.07049	0.351
41DAP/reference	1.11984	0.093
42DAP/reference	1.24315	0.059
43DAP/reference	1.20707	0.148
47DAP/reference	0.99744	1
52DAP/reference	1.18013	0.183
57DAP/reference	1.13245	0.046

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11605	0.397
17DAP/reference	1.1119	0.042
27DAP/reference	1.03048	0.974
39DAP/reference	0.97762	0.497
41DAP/reference	0.96184	0.348
42DAP/reference	0.94912	0.032
43DAP/reference	1.35908	0.062
47DAP/reference	1.03775	0.164
52DAP/reference	1.0573	0.471
57DAP/reference	1.23174	0.014

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8979	0.214
17DAP/reference	1.04547	0.814
27DAP/reference	1.20289	0.046
39DAP/reference	1.07217	0.318
41DAP/reference	1.01735	0.84
42DAP/reference	0.89966	0.172
43DAP/reference	0.8304	0.106
47DAP/reference	0.85409	0.191
52DAP/reference	0.94507	0.464
57DAP/reference	0.81458	0.024

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0841	0.966
26DAP/20DAP	1.17153	0.793
34DAP/26DAP	1.21311	0.819
51DAP/34DAP	2.00659	0.666
52DAP/51DAP	0.81152	1
53DAP/52DAP	1.06742	0.935
55DAP/53DAP	1.18387	0.885
57DAP/55DAP	1.44479	0.461
62DAP/57DAP	0.84876	0.162
68DAP/62DAP	0.96651	0.834
68DAP/14DAP	1.02077	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.83305	0.05

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.95957	0.765
Mature Green Tomato/Ripe Tomato	1.32419	0.523
Immature Eggplant/Mature Eggplant	1.03564	0.507
Ripe Pepper/Ripe Tomato	0.98824	1
Mature Eggplant/Ripe Tomato	1.26567	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00265	1
1-1-2/M82	N/A	N/A
12-2/M82	1.39708
12-4/M82	0.91748	1
1-3/M82	0.70305
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.88705	1
3-2/M82	N/A	N/A
4-1-1/M82	0.62029
4-1/M82	1.18298	1
4-3-2/M82	N/A	N/A
4-3/M82	1.22307
5-3/M82	0.96201	0.395
6-2/M82	N/A	N/A
6-3/M82	1.14065	1
7-1/M82	0.82408	0.398
7-2/M82	1.05192	0.385
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.72431	0.321
IL2-6/WTpooled	0.91361	1
IL7-5/WTpooled	1.75982
IL7-3/WTpooled	1.19323	1
IL12-4/WTpooled	1.05779	0.595
IL1-4/WTpooled	0.85616	0.457
WT/WTpooled	1.03973	0.911

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	1.05964	0.167

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.13752	0.921
DC3000/delta hrp 6h	0.89448	0.95
DC3000/delta hrp 12h	1.08101	1
DC3000/delta hrp 24h	1.04063	0.71

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	3.67882
DC3000 delta B/DC3000 delta AB	0.9759	0.892

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.08702	1
Exp 36h	0.88076	0.661
Exp 60h	1.04753	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96959	1
Var 0h	0.84817	1
Var 12h I row2-row1	0.97701	0.948
Var 12h NI row2-row1	0.85772	0.82
Var 36h I row2-row1	0.98979	1
Var 36h NI row2-row1	1.4011	1
Var 60h I row2-row1	0.84795	0.582
Var 60h NI row2-row1	0.92304	0.977
Time course 0hI-0hNI	0.98238	0.94
Time course 12hI-12hNI	0.95197	0.695
Time course 36hI-36hNI	0.82085	0.04
Time course 60hI-60hNI	0.50707	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)	0.9143	0.529
transgenic ySAMdc/azygous control (breaker)	0.49173	0.118
transgenic ySAMdc/azygous control (red)	0.95444	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02937	0.556

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.72137	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.04083	0.14
Manapal/WT (break)	0.83511	1
Manapal/WT (red)	1.074	0.222