Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.10.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.41948	0.244
27DAP/17DAP	1.14669	0.825
39DAP/27DAP	1.29637	0.363
41DAP/39DAP	0.79202	0.25
42DAP/41DAP	1.02612	1
43DAP/42DAP	0.9895	0.93
47DAP/43DAP	0.90282	0.667
52DAP/47DAP	0.89978	0.695
57DAP/52DAP	1.00599	0.996

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93946	0.182
17DAP/reference	0.9415	0.419
27DAP/reference	0.89898	0.013
39DAP/reference	1.01432	0.664
41DAP/reference	1.01326	1
42DAP/reference	0.9394	0.145
43DAP/reference	1.04874	0.495
47DAP/reference	1.00837	1
52DAP/reference	0.82708	0.086
57DAP/reference	0.86587	0.027

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.58681	0.036
27DAP/17DAP	1.09567	0.699
39DAP/27DAP	0.92654	0.536
41DAP/39DAP	1.06877	0.986
42DAP/41DAP	1.2907	0.508
43DAP/42DAP	0.8557	0.089
47DAP/43DAP	0.96592	0.833
52DAP/47DAP	1.0178	1
57DAP/52DAP	1.12085	0.388
57DAP/7DAP	1.71327	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95468	0.296
17DAP/reference	0.87519	0.021
27DAP/reference	0.92233	0.2
39DAP/reference	0.81433	0.011
41DAP/reference	0.74876	0.017
42DAP/reference	0.65847	0.01
43DAP/reference	0.78836	0.027
47DAP/reference	0.96166	0.383
52DAP/reference	0.80669	0.09
57DAP/reference	0.75229	0.02

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04965	0.679
17DAP/reference	0.96992	0.499
27DAP/reference	0.90683	0.134
39DAP/reference	0.94071	0.281
41DAP/reference	0.91484	0.242
42DAP/reference	0.82627	0.05
43DAP/reference	1.12937	0.479
47DAP/reference	1.0343	0.916
52DAP/reference	0.90033	0.043
57DAP/reference	1.10505	0.567

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98171	0.526
17DAP/reference	1.0532	0.641
27DAP/reference	0.81543	0.089
39DAP/reference	0.878	0.025
41DAP/reference	0.86638	0.019
42DAP/reference	0.93917	0.445
43DAP/reference	0.84589	0.027
47DAP/reference	0.97297	0.494
52DAP/reference	0.98576	0.747
57DAP/reference	0.75006	0.037

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04088	0.966
26DAP/20DAP	1.48831	0.099
34DAP/26DAP	0.85524	0.124
51DAP/34DAP	1.07523	0.677
52DAP/51DAP	0.8235	0.151
53DAP/52DAP	1.10555	0.678
55DAP/53DAP	1.00325	0.964
57DAP/55DAP	1.1589	0.728
62DAP/57DAP	1.01923	1
68DAP/62DAP	0.73839	0.07
68DAP/14DAP	0.60882	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.27626	0.038

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.22079	0.058
Mature Green Tomato/Ripe Tomato	1.209	0.814
Immature Eggplant/Mature Eggplant	0.9168	0.448
Ripe Pepper/Ripe Tomato	1.0678	1
Mature Eggplant/Ripe Tomato	0.81816	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03437	1
1-1-2/M82	1.19748	1
12-2/M82	0.9631	0.955
12-4/M82	1.35416	1
1-3/M82	1.17422	0.479
2-1-1/M82	0.88667	0.465
2-1/M82	0.98286	1
2-6/M82	1.04067	1
3-2/M82	1.03381	0.967
4-1-1/M82	0.85888	0.962
4-1/M82	1.21718	0.512
4-3-2/M82	1.01979	1
4-3/M82	0.85142	0.72
5-3/M82	0.95967	0.642
6-2/M82	0.84102	0.497
6-3/M82	0.91266	0.982
7-1/M82	0.96804
7-2/M82	0.98877	1
9-3-2/M82	1.14667	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.3802	0.277
IL2-6/WTpooled	0.9312	1
IL7-5/WTpooled	1.15527	0.792
IL7-3/WTpooled	1.1093	1
IL12-4/WTpooled	1.14694	0.646
IL1-4/WTpooled	0.98086	1
WT/WTpooled	0.97291	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	0.90425	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00271	1
DC3000/delta hrp 6h	1.00276	0.95
DC3000/delta hrp 12h	1.10211	1
DC3000/delta hrp 24h	0.86044	0.107

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.66619	0.024
DC3000 delta B/DC3000 delta AB	0.7948	0.025

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.05624	0.254
Exp 36h	0.97883	0.943
Exp 60h	0.97811	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01886	1
Var 0h	1.03215	1
Var 12h I row2-row1	1.01105	1
Var 12h NI row2-row1	0.91372	0.82
Var 36h I row2-row1	1.02578	1
Var 36h NI row2-row1	1.13917	0.482
Var 60h I row2-row1	0.87385	0.285
Var 60h NI row2-row1	0.9446	0.932
Time course 0hI-0hNI	1.00493	1
Time course 12hI-12hNI	1.03453	0.73
Time course 36hI-36hNI	1.05533	0.316
Time course 60hI-60hNI	1.17492	0.042

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)	0.98923	0.614
transgenic ySAMdc/azygous control (breaker)	1.18748	1
transgenic ySAMdc/azygous control (red)	1.06901	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05153	0.148

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.99042	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.62211	0.307
Manapal/WT (break)	1.24786	0.183
Manapal/WT (red)	0.54126	0.181