Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-4.2.1.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.39887	0.272
27DAP/17DAP	1.21577	0.872
39DAP/27DAP	1.58168	0.1
41DAP/39DAP	0.87743	0.49
42DAP/41DAP	2.63903	0.85
43DAP/42DAP	8.19656	0.037
47DAP/43DAP	0.31584	0.042
52DAP/47DAP	1.82439	0.702
57DAP/52DAP	1.02542	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76702	0.024
17DAP/reference	0.63292	0.009
27DAP/reference	0.97315	0.567
39DAP/reference	0.75806	0.015
41DAP/reference	0.75131	0.009
42DAP/reference	1.44758	0.003
43DAP/reference	0.841	0.017
47DAP/reference	1.23264	0.015
52DAP/reference	1.72209	0.017
57DAP/reference	1.38585	0.016

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16506	0.406
27DAP/17DAP	1.78172	0.045
39DAP/27DAP	0.64143	0.062
41DAP/39DAP	1.36563	0.051
42DAP/41DAP	0.8645	0.265
43DAP/42DAP	0.86254	0.056
47DAP/43DAP	1.28718	0.681
52DAP/47DAP	1.31762	0.414
57DAP/52DAP	1.15043	0.594
57DAP/7DAP	0.75272	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83503	0.088
17DAP/reference	0.90054	0.22
27DAP/reference	1.23791	0.026
39DAP/reference	0.728	0.012
41DAP/reference	1.51342	0.023
42DAP/reference	1.26116	0.132
43DAP/reference	0.76629	0.025
47DAP/reference	0.80164	0.128
52DAP/reference	0.75156	0.049
57DAP/reference	1.0257	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74226	0.067
17DAP/reference	0.66627	0.005
27DAP/reference	1.06264	0.974
39DAP/reference	1.0169	0.722
41DAP/reference	1.17729	0.055
42DAP/reference	1.07573	0.398
43DAP/reference	0.88114	0.229
47DAP/reference	0.92231	0.184
52DAP/reference	0.91448	0.239
57DAP/reference	0.94203	0.361

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.67523	0.052
17DAP/reference	1.06717	0.738
27DAP/reference	1.01623	0.967
39DAP/reference	0.88549	0.101
41DAP/reference	0.804	0.058
42DAP/reference	1.22355	0.154
43DAP/reference	0.94223	0.449
47DAP/reference	0.84981	0.023
52DAP/reference	1.09145	0.694
57DAP/reference	1.7167	0.012

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02818	0.966
26DAP/20DAP	0.80136	1
34DAP/26DAP	N/A	N/A
51DAP/34DAP	0.51971	N/A
52DAP/51DAP	1.0106	1
53DAP/52DAP	0.85814	0.631
55DAP/53DAP	1.07616	0.848
57DAP/55DAP	0.88659	0.59
62DAP/57DAP	1.09169	0.902
68DAP/62DAP	1.68489	0.464
68DAP/14DAP	1.65568	0.022

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.27401	0.591

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.51653	0.256
Immature Eggplant/Mature Eggplant	1.41043	N/A
Ripe Pepper/Ripe Tomato	0.13889	0.293
Mature Eggplant/Ripe Tomato	0.27041	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.45983	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.70758	0.358
1-3/M82	N/A	N/A
2-1-1/M82	3.10294	N/A
2-1/M82	3.20668	N/A
2-6/M82	1.01836	1
3-2/M82	0.69624	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	0.53	N/A
5-3/M82	2.20708	0.496
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.62488	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.94859	1
IL2-6/WTpooled	1.05775	0.584
IL7-5/WTpooled	1.35844	0.792
IL7-3/WTpooled	0.77705	0.31
IL12-4/WTpooled	0.96814	1
IL1-4/WTpooled	0.97022	0.699
WT/WTpooled	0.88736	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	1.60148	0.222

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95345	0.807
DC3000/delta hrp 6h	2.49176	N/A
DC3000/delta hrp 12h	0.98766	1
DC3000/delta hrp 24h	1.09561	0.411

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.60294	N/A
DC3000 delta B/DC3000 delta AB	0.77508	0.026

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.88321	1
Exp 36h	N/A	N/A
Exp 60h	1.54904	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95852	1
Var 0h	0.751	0.933
Var 12h I row2-row1	0.92934	0.77
Var 12h NI row2-row1	0.80622	0.627
Var 36h I row2-row1	0.96626	1
Var 36h NI row2-row1	2.99558	1
Var 60h I row2-row1	1.39791	0.562
Var 60h NI row2-row1	0.90718	0.458
Time course 0hI-0hNI	0.94002	0.698
Time course 12hI-12hNI	1.068	0.65
Time course 36hI-36hNI	2.5232	0.005
Time course 60hI-60hNI	2.66278	0.017

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)	0.56142	0.297
transgenic ySAMdc/azygous control (breaker)	1.95085	0.248
transgenic ySAMdc/azygous control (red)	0.83984	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95882	0.061

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.70555	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.60349	0.307
Manapal/WT (break)	0.58567	1
Manapal/WT (red)	3.72118	0.134