Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.1.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.7312	0.169
27DAP/17DAP	1.00002	0.973
39DAP/27DAP	0.8911	0.62
41DAP/39DAP	1.19742	0.638
42DAP/41DAP	1.38227	0.481
43DAP/42DAP	1.0501	1
47DAP/43DAP	0.75982	0.274
52DAP/47DAP	1.13968	0.758
57DAP/52DAP	0.96086	0.956

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79612	0.083
17DAP/reference	0.77776	0.02
27DAP/reference	0.9269	0.406
39DAP/reference	0.81954	0.035
41DAP/reference	0.69141	0.011
42DAP/reference	1.01798	1
43DAP/reference	0.98075	0.691
47DAP/reference	1.08038	0.433
52DAP/reference	1.12799	0.272
57DAP/reference	1.47677	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9205	0.336
27DAP/17DAP	1.01881	0.976
39DAP/27DAP	1.16813	0.186
41DAP/39DAP	1.21403	0.042
42DAP/41DAP	1.0026	0.92
43DAP/42DAP	1.10417	0.176
47DAP/43DAP	1.08222	0.552
52DAP/47DAP	1.0935	0.666
57DAP/52DAP	1.20345	0.224
57DAP/7DAP	0.91992	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0731	0.6
17DAP/reference	1.12584	0.064
27DAP/reference	1.02442	0.974
39DAP/reference	1.2543	0.081
41DAP/reference	1.06259	0.491
42DAP/reference	1.15654	0.059
43DAP/reference	1.10303	0.124
47DAP/reference	1.22364	0.13
52DAP/reference	1.10369	0.113
57DAP/reference	0.99458	0.648

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82762	0.079
17DAP/reference	0.75951	0.034
27DAP/reference	0.91335	0.317
39DAP/reference	0.90678	0.381
41DAP/reference	1.04768	0.814
42DAP/reference	1.09545	0.332
43DAP/reference	0.80429	0.128
47DAP/reference	0.94433	0.277
52DAP/reference	0.9978	0.761
57DAP/reference	0.80019	0.116

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16686	0.167
17DAP/reference	1.1381	0.665
27DAP/reference	0.95563	0.465
39DAP/reference	0.98509	0.643
41DAP/reference	0.89301	0.167
42DAP/reference	1.17196	0.279
43DAP/reference	1.02787	0.894
47DAP/reference	1.06877	0.934
52DAP/reference	0.92459	0.505
57DAP/reference	1.72194	0.028

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.1415	0.966
26DAP/20DAP	1.18229	0.275
34DAP/26DAP	0.97589	0.961
51DAP/34DAP	1.16783	0.164
52DAP/51DAP	0.9775	1
53DAP/52DAP	1.50201	0.196
55DAP/53DAP	1.0168	1
57DAP/55DAP	0.86917	0.448
62DAP/57DAP	1.18523	1
68DAP/62DAP	2.48298	0.026
68DAP/14DAP	3.34161	0.022

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.08775	0.527

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.81249	0.268
Mature Green Tomato/Ripe Tomato	0.67938	0.148
Immature Eggplant/Mature Eggplant	0.72378	0.062
Ripe Pepper/Ripe Tomato	0.83694	1
Mature Eggplant/Ripe Tomato	0.52538	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9874
1-1-2/M82	0.81814	1
12-2/M82	1.0477
12-4/M82	0.86075	0.282
1-3/M82	1.68272	0.479
2-1-1/M82	1.49187
2-1/M82	1.11904	1
2-6/M82	N/A	N/A
3-2/M82	1.2392
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.31998
4-3/M82	1.25931	1
5-3/M82	0.86282	1
6-2/M82	1.77509	0.235
6-3/M82	1.47647
7-1/M82	0.76862	0.466
7-2/M82	0.86474	0.796
9-3-2/M82	1.21978	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.01259	1
IL2-6/WTpooled	0.61249	0.348
IL7-5/WTpooled	1.06185	1
IL7-3/WTpooled	1.11291	1
IL12-4/WTpooled	0.90361	0.581
IL1-4/WTpooled	1.00034	1
WT/WTpooled	1.0609	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	1.1612	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92739	0.839
DC3000/delta hrp 6h	1.11973	0.95
DC3000/delta hrp 12h	0.92439	1
DC3000/delta hrp 24h	0.98585	0.934

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.28504	0.042
DC3000 delta B/DC3000 delta AB	1.32519	0.129

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.96434	1
Exp 36h	1.16121	0.693
Exp 60h	1.14632	0.226

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99605	1
Var 0h	0.79666	1
Var 12h I row2-row1	1.06622	0.613
Var 12h NI row2-row1	1.09232	1
Var 36h I row2-row1	1.30684	0.339
Var 36h NI row2-row1	0.88398	0.522
Var 60h I row2-row1	0.80733	0.287
Var 60h NI row2-row1	0.79327	0.431
Time course 0hI-0hNI	0.96615	0.751
Time course 12hI-12hNI	1.07706	0.56
Time course 36hI-36hNI	1.44124	0.005
Time course 60hI-60hNI	3.25279	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)	1.19872	0.325
transgenic ySAMdc/azygous control (breaker)	0.71506	0.173
transgenic ySAMdc/azygous control (red)	0.98312	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06279	0.142

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.8262	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.87311	1
Manapal/WT (break)	1.036	1
Manapal/WT (red)	0.74725	0.183