Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.18.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89576	0.413
27DAP/17DAP	1.19121	0.825
39DAP/27DAP	1.0851	0.882
41DAP/39DAP	1.02368	0.83
42DAP/41DAP	1.23828	0.843
43DAP/42DAP	0.88923	0.741
47DAP/43DAP	0.94092	0.746
52DAP/47DAP	1.10192	0.934
57DAP/52DAP	1.09058	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92618	0.2
17DAP/reference	0.96375	0.321
27DAP/reference	0.88309	0.08
39DAP/reference	0.85259	0.093
41DAP/reference	0.89175	0.154
42DAP/reference	0.85537	0.001
43DAP/reference	0.9037	0.063
47DAP/reference	0.90566	0.06
52DAP/reference	1.0002	0.668
57DAP/reference	1.0071	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.21674	0.326
27DAP/17DAP	1.05747	0.943
39DAP/27DAP	0.8554	0.572
41DAP/39DAP	1.38998	0.837
42DAP/41DAP	1.22301	0.327
43DAP/42DAP	0.71152
47DAP/43DAP	1.17749	0.88
52DAP/47DAP	1.37183	0.563
57DAP/52DAP	1.60415	0.265
57DAP/7DAP	1.57693	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20234	0.16
17DAP/reference	1.37108	0.014
27DAP/reference	1.44475	0.012
39DAP/reference	1.79341	0.007
41DAP/reference	1.73558	0.039
42DAP/reference	1.42699	0.1
43DAP/reference	1.9152	0.006
47DAP/reference	1.28324	0.345
52DAP/reference	1.47557	0.009
57DAP/reference	1.84559	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95344	0.475
17DAP/reference	0.86382	0.124
27DAP/reference	0.79384	0.036
39DAP/reference	0.84282	0.039
41DAP/reference	0.88123	0.115
42DAP/reference	0.85523	0.081
43DAP/reference	0.80871	0.07
47DAP/reference	0.88656	0.068
52DAP/reference	0.94334	0.239
57DAP/reference	0.84558	0.144

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.33984	0.098
17DAP/reference	1.06197	0.842
27DAP/reference	1.24197	0.096
39DAP/reference	1.40464	0.02
41DAP/reference	1.20196	0.197
42DAP/reference	1.15354	0.576
43DAP/reference	1.22683	0.142
47DAP/reference	0.94775	0.335
52DAP/reference	1.11981	0.639
57DAP/reference	1.03125	0.717

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03129	1
26DAP/20DAP	0.84323	1
34DAP/26DAP	0.96632	0.988
51DAP/34DAP	1.0487	0.795
52DAP/51DAP	1.35314	0.503
53DAP/52DAP	0.77886	0.595
55DAP/53DAP	1.25283	0.185
57DAP/55DAP	1.0102	1
62DAP/57DAP	1.07248	1
68DAP/62DAP	1.84816	0.23
68DAP/14DAP	1.19259	0.714

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.19129	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.18481	0.632
Immature Eggplant/Mature Eggplant	4.59187	0.05
Ripe Pepper/Ripe Tomato	0.34911	1
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.59084
12-2/M82	0.21931
12-4/M82	0.96474
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	0.77801
4-3-2/M82	0.69922
4-3/M82	N/A	N/A
5-3/M82	1.05228
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.17671
9-3-2/M82	0.62037

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
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	N/A	N/A
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	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	0.82352	0.541
DC3000/delta hrp 6h	0.92028	0.95
DC3000/delta hrp 12h	1.13068	1
DC3000/delta hrp 24h	1.18037	0.779

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	N/A	N/A
Exp 36h	0.71156	0.661
Exp 60h	0.87005	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97517	1
Var 0h	1.18699	0.421
Var 12h I row2-row1	0.05202	1
Var 12h NI row2-row1	0.48382	0.546
Var 36h I row2-row1	2.05541	0.601
Var 36h NI row2-row1	1.07317
Var 60h I row2-row1	0.97691
Var 60h NI row2-row1	1.69383	0.904
Time course 0hI-0hNI	1.01396	0.935
Time course 12hI-12hNI	1.52608	0.01
Time course 36hI-36hNI	1.89352	0.218
Time course 60hI-60hNI	1.2662	0.575

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)	1.12469	0.654
transgenic ySAMdc/azygous control (breaker)	1.00919	1
transgenic ySAMdc/azygous control (red)	0.86734	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02433	0.471

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.8022	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.86473	1
Manapal/WT (break)	0.72225	1
Manapal/WT (red)	0.88103	0.424