Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.17.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81249	0.419
27DAP/17DAP	0.80594	0.572
39DAP/27DAP	0.80092	0.507
41DAP/39DAP	1.66107	0.423
42DAP/41DAP	0.97789	1
43DAP/42DAP	1.1259	1
47DAP/43DAP	1.22025	0.727
52DAP/47DAP	1.21924	0.8
57DAP/52DAP	1.55308	0.737

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87178	0.167
17DAP/reference	0.92553	0.158
27DAP/reference	0.94245	0.249
39DAP/reference	0.95399	0.554
41DAP/reference	0.96625	0.434
42DAP/reference	0.86208	0.004
43DAP/reference	1.05491	0.36
47DAP/reference	0.93977	0.161
52DAP/reference	0.963	0.267
57DAP/reference	0.96533	0.395

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82691	0.251
27DAP/17DAP	0.87742	0.39
39DAP/27DAP	0.9947	1
41DAP/39DAP	1.05996	0.895
42DAP/41DAP	1.3787	0.084
43DAP/42DAP	0.86023	0.04
47DAP/43DAP	1.02502	0.973
52DAP/47DAP	0.83514	0.304
57DAP/52DAP	0.98586	0.756
57DAP/7DAP	0.61638	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18519	0.231
17DAP/reference	1.47609	0.028
27DAP/reference	1.33991	0.049
39DAP/reference	1.18012	0.157
41DAP/reference	1.05985	1
42DAP/reference	1.17562	0.233
43DAP/reference	1.13385	0.364
47DAP/reference	1.2186	0.525
52DAP/reference	1.10922	0.781
57DAP/reference	1.30875	0.022

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03998	0.794
17DAP/reference	0.7992	0.022
27DAP/reference	0.91982	0.249
39DAP/reference	0.78555	0.029
41DAP/reference	1.09177	0.502
42DAP/reference	0.79633	0.013
43DAP/reference	0.99984	0.592
47DAP/reference	0.80653	0.013
52DAP/reference	0.87007	0.131
57DAP/reference	0.94974	0.433

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.32073	0.067
17DAP/reference	0.99946	0.81
27DAP/reference	1.47657	0.088
39DAP/reference	1.12399	0.633
41DAP/reference	1.12232	0.343
42DAP/reference	0.98755	0.816
43DAP/reference	1.01018	1
47DAP/reference	0.84648	0.045
52DAP/reference	0.92154	0.518
57DAP/reference	0.96618	0.483

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03563	0.966
26DAP/20DAP	1.02051	1
34DAP/26DAP	0.88298	0.753
51DAP/34DAP	1.41331	0.627
52DAP/51DAP	0.82449	1
53DAP/52DAP	1.13607	0.858
55DAP/53DAP	1.01863	0.807
57DAP/55DAP	1.1696	0.037
62DAP/57DAP	1.11371	0.868
68DAP/62DAP	1.13867	0.977
68DAP/14DAP	1.54414	0.223

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.14294	0.74

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.97242
Mature Green Tomato/Ripe Tomato	0.94126	0.66
Immature Eggplant/Mature Eggplant	2.20421
Ripe Pepper/Ripe Tomato	1.28093
Mature Eggplant/Ripe Tomato	1.05319	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.02102
12-2/M82	N/A	N/A
12-4/M82	1.00808
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	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.97248
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.22856	0.277
IL2-6/WTpooled	0.90916	1
IL7-5/WTpooled	0.95733
IL7-3/WTpooled	1.26724	1
IL12-4/WTpooled	0.59405	0.566
IL1-4/WTpooled	0.82375	0.699
WT/WTpooled	0.91889	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	1.26004	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10262
DC3000/delta hrp 6h	0.03949
DC3000/delta hrp 12h	1.10826	1
DC3000/delta hrp 24h	N/A	N/A

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	0.91901	1
Exp 36h	1.06543	1
Exp 60h	1.41297	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05503	1
Var 0h	0.95652	1
Var 12h I row2-row1	1.13343	0.324
Var 12h NI row2-row1	1.1061	1
Var 36h I row2-row1	1.09664	0.742
Var 36h NI row2-row1	0.84745	0.308
Var 60h I row2-row1	0.7236	0.374
Var 60h NI row2-row1	0.76078	1
Time course 0hI-0hNI	0.83548	0.185
Time course 12hI-12hNI	1.06281	0.724
Time course 36hI-36hNI	1.19307	0.114
Time course 60hI-60hNI	1.57168	0.047

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)	1.07495	0.312
transgenic ySAMdc/azygous control (breaker)	1.5511	0.172
transgenic ySAMdc/azygous control (red)	1.04341	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	1.0385	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.95108	1
Manapal/WT (break)	0.881	0.236
Manapal/WT (red)	0.99182	1