Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.1.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98357	0.847
27DAP/17DAP	1.02277	0.916
39DAP/27DAP	0.86581	0.495
41DAP/39DAP	1.33779	0.306
42DAP/41DAP	1.01164	1
43DAP/42DAP	0.94772	0.887
47DAP/43DAP	0.8569	0.496
52DAP/47DAP	1.20463	0.671
57DAP/52DAP	1.07513	0.907

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01181	0.9
17DAP/reference	1.02383	0.565
27DAP/reference	1.01945	0.735
39DAP/reference	0.95249	0.475
41DAP/reference	0.95654	0.434
42DAP/reference	0.96249	0.268
43DAP/reference	0.98102	0.576
47DAP/reference	0.96175	0.3
52DAP/reference	0.92218	0.258
57DAP/reference	0.95307	0.138

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92337	0.47
27DAP/17DAP	1.00646	1
39DAP/27DAP	1.18526	0.388
41DAP/39DAP	1.04219	1
42DAP/41DAP	0.99693	0.87
43DAP/42DAP	1.09375	0.585
47DAP/43DAP	0.93648	0.637
52DAP/47DAP	0.94273	0.837
57DAP/52DAP	0.86762	0.505
57DAP/7DAP	1.07904	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04202	0.793
17DAP/reference	1.18687	0.007
27DAP/reference	1.52006	0.01
39DAP/reference	1.60041	0.006
41DAP/reference	1.60792	0.012
42DAP/reference	1.79366	0.007
43DAP/reference	1.7249	0.006
47DAP/reference	1.4904	0.285
52DAP/reference	2.30484	0.007
57DAP/reference	2.13015	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02194	0.741
17DAP/reference	1.03621	0.658
27DAP/reference	0.9973	0.735
39DAP/reference	1.01509	1
41DAP/reference	0.99327	0.584
42DAP/reference	0.98917	0.594
43DAP/reference	1.00406	1
47DAP/reference	0.91296	0.016
52DAP/reference	1.01829	0.702
57DAP/reference	1.09115	0.155

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86999	0.119
17DAP/reference	0.9541	0.389
27DAP/reference	1.18828	0.044
39DAP/reference	1.27709	0.045
41DAP/reference	1.27612	0.009
42DAP/reference	1.51077	0.052
43DAP/reference	1.31	0.139
47DAP/reference	0.973	0.383
52DAP/reference	1.36019	0.209
57DAP/reference	0.8532	0.124

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01891	0.966
26DAP/20DAP	0.79579	0.512
34DAP/26DAP	1.07929	0.819
51DAP/34DAP	1.02959	0.84
52DAP/51DAP	1.05554	0.783
53DAP/52DAP	1.11402	0.738
55DAP/53DAP	1.1229	0.361
57DAP/55DAP	1.20641	0.728
62DAP/57DAP	N/A	N/A
68DAP/62DAP	1.28008	0.305
68DAP/14DAP	0.96208	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.7704	0.072

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.14685	0.666
Mature Green Tomato/Ripe Tomato	1.11951	0.881
Immature Eggplant/Mature Eggplant	0.96832	0.594
Ripe Pepper/Ripe Tomato	3.08046
Mature Eggplant/Ripe Tomato	1.87577	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.06823	0.742
1-1-2/M82	1.10639	1
12-2/M82	1.60407
12-4/M82	0.9718	1
1-3/M82	0.90015	0.501
2-1-1/M82	1.21361	0.764
2-1/M82	1.01631	1
2-6/M82	1.17468	0.425
3-2/M82	0.84163
4-1-1/M82	0.99265	1
4-1/M82	0.95634
4-3-2/M82	0.82798	0.487
4-3/M82	0.88142	0.72
5-3/M82	0.99357	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.16889	0.598
7-2/M82	1.01066	1
9-3-2/M82	0.97246	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	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	0.99713	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02867	0.921
DC3000/delta hrp 6h	1.01551	0.95
DC3000/delta hrp 12h	0.89141	1
DC3000/delta hrp 24h	1.05297	0.604

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.65458
DC3000 delta B/DC3000 delta AB	0.93934	0.619

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02431	1
Exp 36h	0.70403	0.504
Exp 60h	0.63626	0.251

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

hybridization	ratio	FDR (corrected p value)
self-self	0.87504	1
Var 0h	0.99182	1
Var 12h I row2-row1	0.76978	0.565
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	0.8699	1
Var 36h NI row2-row1	1.92152	1
Var 60h I row2-row1	0.57593
Var 60h NI row2-row1	1.43402	0.904
Time course 0hI-0hNI	1.04186	1
Time course 12hI-12hNI	0.94028	0.739
Time course 36hI-36hNI	0.7307	0.039
Time course 60hI-60hNI	0.54154	0.015

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)	1.21187	0.212
transgenic ySAMdc/azygous control (breaker)	0.85781	0.49
transgenic ySAMdc/azygous control (red)	1.1269	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01416	0.421

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.2209	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.61431	1
Manapal/WT (break)	0.83218	0.333
Manapal/WT (red)	1.38489	0.15