Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.3.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1317	0.575
27DAP/17DAP	0.83486	0.579
39DAP/27DAP	1.30271	0.405
41DAP/39DAP	0.72039	0.143
42DAP/41DAP	1.02363	1
43DAP/42DAP	1.11525	0.861
47DAP/43DAP	1.04976	0.555
52DAP/47DAP	0.77604	0.461
57DAP/52DAP	0.96197	0.956

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92368	0.194
17DAP/reference	0.83345	0.224
27DAP/reference	0.86685	0.092
39DAP/reference	0.82603	0.027
41DAP/reference	0.82039	0.341
42DAP/reference	0.89838	0.081
43DAP/reference	0.61728
47DAP/reference	0.85276	0.174
52DAP/reference	0.6093	0.058
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	N/A	N/A
27DAP/17DAP	0.99666	0.969
39DAP/27DAP	0.31989	0.322
41DAP/39DAP	1.36961
42DAP/41DAP	1.81856
43DAP/42DAP	1.27151
47DAP/43DAP	1.37419	0.95
52DAP/47DAP	0.97413	0.902
57DAP/52DAP	1.59382
57DAP/7DAP	0.86446	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00001	0.758
17DAP/reference	0.97766	0.447
27DAP/reference	1.1623	1
39DAP/reference	0.98915	0.64
41DAP/reference	1.13877	0.363
42DAP/reference	0.88337	0.05
43DAP/reference	1.0237	1
47DAP/reference	0.84913	0.293
52DAP/reference	1.21183	0.308
57DAP/reference	1.18261	0.288

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96978	0.655
17DAP/reference	0.99616	0.594
27DAP/reference	1.06554	0.917
39DAP/reference	0.71981	0.016
41DAP/reference	0.90363	0.148
42DAP/reference	0.74983	0.011
43DAP/reference	0.75133	0.053
47DAP/reference	0.84516	0.007
52DAP/reference	0.60632	0.004
57DAP/reference	0.68836	0.009

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.66975
17DAP/reference	1.4244	0.059
27DAP/reference	1.36153	0.721
39DAP/reference	0.99874	0.889
41DAP/reference	1.23281	0.034
42DAP/reference	0.87193	0.445
43DAP/reference	0.99808	0.685
47DAP/reference	0.82063	0.019
52DAP/reference	0.99909	0.781
57DAP/reference	1.1586	0.268

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04022	0.966
26DAP/20DAP	0.75082	0.512
34DAP/26DAP	1.598	0.542
51DAP/34DAP	0.761	0.532
52DAP/51DAP	1.03166
53DAP/52DAP	0.72975	0.505
55DAP/53DAP	1.80298	0.645
57DAP/55DAP	1.15399	0.898
62DAP/57DAP	0.89069	0.681
68DAP/62DAP	0.9354	0.834
68DAP/14DAP	0.79494	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.60262

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.59188	0.127
Mature Green Tomato/Ripe Tomato	1.5757	0.034
Immature Eggplant/Mature Eggplant	0.6923	0.071
Ripe Pepper/Ripe Tomato	2.34073	0.256
Mature Eggplant/Ripe Tomato	1.75994	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.79377	0.638
1-1-2/M82	1.3268	0.972
12-2/M82	0.87037	0.955
12-4/M82	1.36503	1
1-3/M82	N/A	N/A
2-1-1/M82	0.86495
2-1/M82	0.80021
2-6/M82	1.11854
3-2/M82	1.16367	0.549
4-1-1/M82	1.08632	1
4-1/M82	1.9256	0.418
4-3-2/M82	1.4354	0.508
4-3/M82	1.38413	1
5-3/M82	1.17238	1
6-2/M82	0.86344
6-3/M82	N/A	N/A
7-1/M82	0.79141
7-2/M82	1.7008
9-3-2/M82	1.08132	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.15917
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.86237	0.444
WT/WTpooled	1.16173	0.87

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91453	1
DC3000/delta hrp 6h	1.21415	1
DC3000/delta hrp 12h	1.19637	1
DC3000/delta hrp 24h	0.73155	0.051

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02587	1
Exp 36h	0.90353	0.749
Exp 60h	0.95544	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01537
Var 0h	0.44811	0.261
Var 12h I row2-row1	0.7724	0.338
Var 12h NI row2-row1	0.95681	0.82
Var 36h I row2-row1	1.0297	1
Var 36h NI row2-row1	1.05476	1
Var 60h I row2-row1	1.27985	0.543
Var 60h NI row2-row1	0.98107	1
Time course 0hI-0hNI	0.98156	0.943
Time course 12hI-12hNI	0.97935	0.79
Time course 36hI-36hNI	0.93928	0.129
Time course 60hI-60hNI	0.16597	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)	1.15957	0.511
transgenic ySAMdc/azygous control (breaker)	2.38407	0.166
transgenic ySAMdc/azygous control (red)	0.95929	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.91181	0.353

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.6737	0.228

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	4.14174	0.084
Manapal/WT (break)	3.50021	0.126
Manapal/WT (red)	3.71717	0.126