Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.14.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12219	0.77
27DAP/17DAP	1.1309	0.872
39DAP/27DAP	0.93657	0.641
41DAP/39DAP	1.1188	0.663
42DAP/41DAP	1.002	1
43DAP/42DAP	1.13847	0.954
47DAP/43DAP	1.01242	0.926
52DAP/47DAP	0.87348	0.63
57DAP/52DAP	1.02635	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16011	0.197
17DAP/reference	1.01765	0.369
27DAP/reference	0.99847	0.904
39DAP/reference	0.87316	0.527
41DAP/reference	1.0338	0.365
42DAP/reference	1.01928	0.632
43DAP/reference	0.95625	0.234
47DAP/reference	1.02237	0.685
52DAP/reference	1.11358	0.205
57DAP/reference	1.04418	0.249

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9685	0.542
27DAP/17DAP	1.03688	0.9
39DAP/27DAP	0.987	0.898
41DAP/39DAP	0.99112	1
42DAP/41DAP	0.98215	0.795
43DAP/42DAP	1.03152	0.212
47DAP/43DAP	0.99629	0.99
52DAP/47DAP	1.00119	1
57DAP/52DAP	1.02809	0.856
57DAP/7DAP	1.02414	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.288	0.138
17DAP/reference	1.16099	0.007
27DAP/reference	1.09814	0.06
39DAP/reference	1.39136	0.005
41DAP/reference	1.18429	0.017
42DAP/reference	1.19745	0.018
43DAP/reference	1.31533	0.05
47DAP/reference	1.19451	0.395
52DAP/reference	1.27405	0.029
57DAP/reference	1.3054	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07233	0.315
17DAP/reference	1.07846	0.236
27DAP/reference	1.04199	0.618
39DAP/reference	1.11992	0.146
41DAP/reference	1.06	0.781
42DAP/reference	1.10593	0.233
43DAP/reference	1.12979	0.085
47DAP/reference	0.99083	0.609
52DAP/reference	1.08684	0.322
57DAP/reference	1.0987	0.011

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00386	1
17DAP/reference	0.98988	0.751
27DAP/reference	1.13338	0.038
39DAP/reference	1.18266	0.046
41DAP/reference	1.13399	0.044
42DAP/reference	1.12418	0.106
43DAP/reference	1.09528	0.142
47DAP/reference	1.02039	0.934
52DAP/reference	1.22206	0.15
57DAP/reference	1.12505	0.462

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02119	0.966
26DAP/20DAP	0.98814	1
34DAP/26DAP	1.00453	1
51DAP/34DAP	1.05427	0.73
52DAP/51DAP	1.03591	0.722
53DAP/52DAP	1.04379	0.819
55DAP/53DAP	0.99054	0.876
57DAP/55DAP	0.87339	0.601
62DAP/57DAP	0.98307	0.994
68DAP/62DAP	0.87652	0.543
68DAP/14DAP	0.98456	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.94079	0.304

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.22329	0.068
Mature Green Tomato/Ripe Tomato	1.05685	1
Immature Eggplant/Mature Eggplant	0.98755	1
Ripe Pepper/Ripe Tomato	0.99145	1
Mature Eggplant/Ripe Tomato	2.3327	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.88465
1-1-2/M82	0.91226	1
12-2/M82	1.05789
12-4/M82	1.06113	1
1-3/M82	1.01221	1
2-1-1/M82	0.85296
2-1/M82	N/A	N/A
2-6/M82	1.07667	0.505
3-2/M82	1.0057	1
4-1-1/M82	1.09422	1
4-1/M82	0.81547	0.665
4-3-2/M82	0.9197	0.698
4-3/M82	1.01075	1
5-3/M82	1.07487	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.15368	1
7-2/M82	1.00767
9-3-2/M82	0.8624	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.2128	0.277
IL2-6/WTpooled	1.30143	0.415
IL7-5/WTpooled	1.25519	0.792
IL7-3/WTpooled	0.97597	1
IL12-4/WTpooled	1.18228	0.839
IL1-4/WTpooled	1.11114	1
WT/WTpooled	1.03546	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	0.95504	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96407	1
DC3000/delta hrp 6h	0.95712	0.95
DC3000/delta hrp 12h	0.93097	1
DC3000/delta hrp 24h	1.09134	0.553

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.00928	0.556
DC3000 delta B/DC3000 delta AB	1.02946	0.579

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.05058	1
Exp 36h	1.01316	1
Exp 60h	1.12795	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96532	1
Var 0h	1.02282	1
Var 12h I row2-row1	1.14668	0.196
Var 12h NI row2-row1	1.0026	1
Var 36h I row2-row1	0.99723	1
Var 36h NI row2-row1	0.92573	0.45
Var 60h I row2-row1	1.11727	0.562
Var 60h NI row2-row1	1.06545	1
Time course 0hI-0hNI	1.07858	0.833
Time course 12hI-12hNI	1.04956	0.724
Time course 36hI-36hNI	1.04402	0.316
Time course 60hI-60hNI	1.20367	0.013

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)	1.11559	0.36
transgenic ySAMdc/azygous control (breaker)	0.98922	1
transgenic ySAMdc/azygous control (red)	1.10158	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96528	0.133

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.16071	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.87474	1
Manapal/WT (break)	0.99934	1
Manapal/WT (red)	1.10484	1