Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.17.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.5977	0.083
27DAP/17DAP	1.139	0.849
39DAP/27DAP	0.87975	0.544
41DAP/39DAP	0.95454	0.73
42DAP/41DAP	1.43252	0.527
43DAP/42DAP	1.01379	0.937
47DAP/43DAP	1.19462	0.873
52DAP/47DAP	0.9937	0.74
57DAP/52DAP	1.3892	0.878

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98077	0.513
17DAP/reference	1.00349	0.843
27DAP/reference	1.00714	1
39DAP/reference	1.02709	0.534
41DAP/reference	1.05548	0.365
42DAP/reference	0.91597	0.016
43DAP/reference	0.98387	0.728
47DAP/reference	0.97364	0.345
52DAP/reference	0.88943	0.06
57DAP/reference	0.89436	0.096

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.71787	0.105
27DAP/17DAP	1.52526	0.187
39DAP/27DAP	0.99745	1
41DAP/39DAP	0.89885	0.923
42DAP/41DAP	1.01602	0.924
43DAP/42DAP	1.14537	0.103
47DAP/43DAP	1.07734	0.822
52DAP/47DAP	1.5264	0.308
57DAP/52DAP	1.11426	0.851
57DAP/7DAP	0.89755	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88978	0.361
17DAP/reference	1.00396	1
27DAP/reference	1.11423	0.06
39DAP/reference	0.85717	0.146
41DAP/reference	1.11301	0.303
42DAP/reference	0.88613	0.235
43DAP/reference	1.24682	0.2
47DAP/reference	1.03912	1
52DAP/reference	0.92169	0.061
57DAP/reference	1.13243	0.232

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06166	0.597
17DAP/reference	0.98688	0.693
27DAP/reference	0.89429	0.134
39DAP/reference	0.89409	0.06
41DAP/reference	0.87896	0.085
42DAP/reference	0.79092	0.011
43DAP/reference	1.04982	0.515
47DAP/reference	0.89314	0.123
52DAP/reference	1.01443	0.988
57DAP/reference	1.08257	0.324

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97341	0.526
17DAP/reference	0.95003	0.433
27DAP/reference	1.07519	0.425
39DAP/reference	0.98485	0.643
41DAP/reference	1.05253	0.818
42DAP/reference	0.79091	0.049
43DAP/reference	0.86762	0.137
47DAP/reference	0.89993	0.168
52DAP/reference	0.97352	0.65
57DAP/reference	0.85061	0.136

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.30709	0.945
26DAP/20DAP	1.05055	1
34DAP/26DAP	0.87754	0.841
51DAP/34DAP	1.32675	0.535
52DAP/51DAP	1.27358	0.733
53DAP/52DAP	1.25691	0.537
55DAP/53DAP	1.08061	0.948
57DAP/55DAP	1.12019	0.881
62DAP/57DAP	1.0075	1
68DAP/62DAP	1.10531	0.914
68DAP/14DAP	0.95018	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.59462	0.026

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	12.3227	0.05
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.01094

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05023	1
1-1-2/M82	0.93723	1
12-2/M82	1.0211	1
12-4/M82	1.34246
1-3/M82	0.5831
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.09356	0.395
3-2/M82	0.85876
4-1-1/M82	1.39738
4-1/M82	1.02414
4-3-2/M82	1.08271
4-3/M82	0.9119
5-3/M82	0.92915	1
6-2/M82	0.79634
6-3/M82	1.01093	1
7-1/M82	1.02088
7-2/M82	1.00553	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.93519	1
IL2-6/WTpooled	1.77665	0.415
IL7-5/WTpooled	0.95806	1
IL7-3/WTpooled	0.85087	0.418
IL12-4/WTpooled	1.05915	1
IL1-4/WTpooled	0.90029	0.699
WT/WTpooled	1.16401	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	1.43757

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95737	1
DC3000/delta hrp 6h	0.98299	0.95
DC3000/delta hrp 12h	0.90849	1
DC3000/delta hrp 24h	1.39623	0.063

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.09344	0.042
DC3000 delta B/DC3000 delta AB	2.18981	0.031

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.79166	1
Exp 36h	1.90295	1
Exp 60h	1.96653	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.93701	1
Var 0h	0.60551	0.933
Var 12h I row2-row1	0.99097	1
Var 12h NI row2-row1	1.44236	1
Var 36h I row2-row1	1.24946	0.601
Var 36h NI row2-row1	0.43366	1
Var 60h I row2-row1	0.97473	1
Var 60h NI row2-row1	0.31873	0.359
Time course 0hI-0hNI	1.07364	1
Time course 12hI-12hNI	0.81172	0.897
Time course 36hI-36hNI	4.08666	0.006
Time course 60hI-60hNI	5.18043	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)	0.939	0.338
transgenic ySAMdc/azygous control (breaker)	0.84973	0.251
transgenic ySAMdc/azygous control (red)	1.12604	0.92

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	0.38436	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.73539	0.172
Manapal/WT (break)	0.80013	0.299
Manapal/WT (red)	1.07969	1