Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.17.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.51344	0.394
27DAP/17DAP	0.95437	0.863
39DAP/27DAP	1.4339	1
41DAP/39DAP	0.84538	0.455
42DAP/41DAP	1.18989	0.873
43DAP/42DAP	0.97841	0.91
47DAP/43DAP	1.19378	0.469
52DAP/47DAP	0.96736	0.832
57DAP/52DAP	1.24975	0.92

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08078	0.788
17DAP/reference	0.94475	0.321
27DAP/reference	1.12801	0.17
39DAP/reference	0.99718	0.941
41DAP/reference	0.96503	0.667
42DAP/reference	1.03999	0.707
43DAP/reference	0.86818	0.088
47DAP/reference	1.1404	0.685
52DAP/reference	1.4774	0.033
57DAP/reference	1.35384	0.019

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.64975	0.105
27DAP/17DAP	1.00462	0.969
39DAP/27DAP	1.92987	0.275
41DAP/39DAP	1.02754	0.853
42DAP/41DAP	0.90836	0.404
43DAP/42DAP	0.83856	0.065
47DAP/43DAP	0.92849	0.569
52DAP/47DAP	1.37287	0.252
57DAP/52DAP	1.1527	0.632
57DAP/7DAP	1.18897	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.72897	0.062
17DAP/reference	0.90588	0.192
27DAP/reference	0.90004	0.171
39DAP/reference	1.16532	0.745
41DAP/reference	0.92874	0.326
42DAP/reference	0.76741	0.044
43DAP/reference	1.01269	0.694
47DAP/reference	1.00236	1
52DAP/reference	0.74742	0.049
57DAP/reference	0.8758	0.093

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91035	0.374
17DAP/reference	0.89542	0.159
27DAP/reference	1.23517	0.097
39DAP/reference	1.14409	0.316
41DAP/reference	1.25744	0.076
42DAP/reference	1.28491	0.044
43DAP/reference	0.94063	0.45
47DAP/reference	0.953	0.292
52DAP/reference	1.04929	0.667
57DAP/reference	0.7367	0.018

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05424	0.75
17DAP/reference	0.82905	0.21
27DAP/reference	1.05196	0.447
39DAP/reference	0.90141	0.36
41DAP/reference	0.71425	0.024
42DAP/reference	1.11621	0.743
43DAP/reference	0.99103	0.568
47DAP/reference	1.16078	0.265
52DAP/reference	1.11883	1
57DAP/reference	1.95983	0.055

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.22561	0.966
26DAP/20DAP	0.78407	0.512
34DAP/26DAP	1.0415	1
51DAP/34DAP	1.83834	0.039
52DAP/51DAP	0.67406	0.079
53DAP/52DAP	1.61595	0.149
55DAP/53DAP	0.71143	0.039
57DAP/55DAP	0.74456	0.213
62DAP/57DAP	0.91973	0.681
68DAP/62DAP	1.40914	0.375
68DAP/14DAP	1.42972	0.077

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.70943	0.083

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.01233
Mature Green Tomato/Ripe Tomato	0.45554	0.029
Immature Eggplant/Mature Eggplant	1.30815	0.19
Ripe Pepper/Ripe Tomato	0.80409	1
Mature Eggplant/Ripe Tomato	1.68405	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	2.93689	0.574
1-1-2/M82	1.09378	1
12-2/M82	N/A	N/A
12-4/M82	1.44686	0.611
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	2.08191	1
5-3/M82	1.11819	1
6-2/M82	0.90287
6-3/M82	0.92097	1
7-1/M82	1.20093	1
7-2/M82	1.28104	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.8996	0.243
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.58838	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.04729	1
WT/WTpooled	N/A	N/A

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	1.31652	0.133

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.17558
DC3000/delta hrp 6h	0.98847	0.95
DC3000/delta hrp 12h	1.15078	1
DC3000/delta hrp 24h	0.5497	0.048

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.34595	0.048
DC3000 delta B/DC3000 delta AB	2.42454	0.069

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.11572	1
Exp 36h	1.0106	0.489
Exp 60h	0.9203	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04433	1
Var 0h	1.93201	0.782
Var 12h I row2-row1	0.79052	0.627
Var 12h NI row2-row1	1.61335	0.34
Var 36h I row2-row1	1.00014	1
Var 36h NI row2-row1	0.65408	0.584
Var 60h I row2-row1	0.77147	0.582
Var 60h NI row2-row1	0.72856	0.431
Time course 0hI-0hNI	1.28821	0.344
Time course 12hI-12hNI	1.15252	0.73
Time course 36hI-36hNI	3.02202	0.004
Time course 60hI-60hNI	6.48539	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)	1.07137	0.347
transgenic ySAMdc/azygous control (breaker)	1.11008	0.178
transgenic ySAMdc/azygous control (red)	0.96124	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.30148	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.46087	0.307
Manapal/WT (break)	1.17272	1
Manapal/WT (red)	1.06472	1