Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.4.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98544	0.858
27DAP/17DAP	1.01714	1
39DAP/27DAP	1.07963	0.841
41DAP/39DAP	1.03026	0.806
42DAP/41DAP	1.03688	1
43DAP/42DAP	1.06252	0.985
47DAP/43DAP	1.06677	0.415
52DAP/47DAP	0.90408	0.702
57DAP/52DAP	1.07299	0.826

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02527	1
17DAP/reference	0.96509	0.474
27DAP/reference	0.98333	0.642
39DAP/reference	1.01193	0.534
41DAP/reference	1.06188	0.587
42DAP/reference	1.04172	0.098
43DAP/reference	0.91754	0.129
47DAP/reference	1.06767	0.34
52DAP/reference	1.02109
57DAP/reference	1.18843	0.114

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97583	0.679
27DAP/17DAP	0.97763	0.684
39DAP/27DAP	0.96436	0.732
41DAP/39DAP	1.03511	0.876
42DAP/41DAP	1.02895	0.886
43DAP/42DAP	1.14959	0.042
47DAP/43DAP	0.96952	0.687
52DAP/47DAP	1.02157	0.927
57DAP/52DAP	0.90429	0.352
57DAP/7DAP	0.96033	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8808	0.224
17DAP/reference	0.87741	0.144
27DAP/reference	1.07959	0.804
39DAP/reference	0.81858	0.021
41DAP/reference	1.09631	0.791
42DAP/reference	1.09893	0.534
43DAP/reference	1.02231	1
47DAP/reference	0.9786	0.671
52DAP/reference	1.07048	0.599
57DAP/reference	1.08444	0.308

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05343	0.19
17DAP/reference	1.03149	0.484
27DAP/reference	0.9783	0.537
39DAP/reference	0.93334	0.099
41DAP/reference	0.92258	0.115
42DAP/reference	0.99748	0.723
43DAP/reference	0.97074	0.507
47DAP/reference	1.00105	0.833
52DAP/reference	0.95124	0.131
57DAP/reference	1.00064	0.916

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07629	0.366
17DAP/reference	1.07269	0.558
27DAP/reference	0.97292	0.516
39DAP/reference	1.0611	0.466
41DAP/reference	0.90759	0.077
42DAP/reference	1.00871	0.994
43DAP/reference	1.05135	0.625
47DAP/reference	0.98922	0.61
52DAP/reference	0.86561	0.268
57DAP/reference	0.97892	0.534

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02399	0.966
26DAP/20DAP	1.09779	0.663
34DAP/26DAP	1.13334	0.542
51DAP/34DAP	1.15284	0.108
52DAP/51DAP	1.11051	0.396
53DAP/52DAP	1.01858	0.868
55DAP/53DAP	1.03716	0.741
57DAP/55DAP	1.05737	0.947
62DAP/57DAP	1.03557	0.767
68DAP/62DAP	0.83913	0.042
68DAP/14DAP	0.99199	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.07612	0.439

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.45441	0.092
Mature Green Tomato/Ripe Tomato	0.87853	0.569
Immature Eggplant/Mature Eggplant	1.47674	0.051
Ripe Pepper/Ripe Tomato	1.49931	0.256
Mature Eggplant/Ripe Tomato	0.35166	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98407	0.961
1-1-2/M82	1.07127
12-2/M82	1.04278	1
12-4/M82	0.96579	1
1-3/M82	0.95258	0.501
2-1-1/M82	0.89287	0.784
2-1/M82	N/A	N/A
2-6/M82	0.96999	1
3-2/M82	1.0032	1
4-1-1/M82	1.00644	1
4-1/M82	1.09963	1
4-3-2/M82	0.94807	1
4-3/M82	0.9707	1
5-3/M82	0.97912	1
6-2/M82	1.02396	1
6-3/M82	0.96897	1
7-1/M82	0.94429	1
7-2/M82	0.98061	0.881
9-3-2/M82	1.02092	1

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	1.52666	1
IL12-4/WTpooled	0.77975	1
IL1-4/WTpooled	1.10351
WT/WTpooled	0.98081	1

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	1.02049	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94506	1
DC3000/delta hrp 6h	0.87263	0.95
DC3000/delta hrp 12h	0.91353	1
DC3000/delta hrp 24h	1.00941	0.84

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.0179	0.515
DC3000 delta B/DC3000 delta AB	1.1093	0.353

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.68477	1
Exp 36h	0.93153	0.879
Exp 60h	0.79123	0.586

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98104	1
Var 0h	0.83946	0.457
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	1.00246

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)	0.8445	0.246
transgenic ySAMdc/azygous control (breaker)	2.0896	0.172
transgenic ySAMdc/azygous control (red)	1.32005	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97715	0.156

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.07628	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.80216	0.09
Manapal/WT (break)	1.45461	0.381
Manapal/WT (red)	2.05162	0.137