Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.2.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00602	0.788
27DAP/17DAP	0.84436	0.604
39DAP/27DAP	0.81472	0.449
41DAP/39DAP	0.83136	0.37
42DAP/41DAP	1.05983	1
43DAP/42DAP	1.02857	1
47DAP/43DAP	1.00193	0.98
52DAP/47DAP	0.77705	0.466
57DAP/52DAP	1.27969	0.948

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.41744	0.101
17DAP/reference	1.08556	0.476
27DAP/reference	1.09672	0.246
39DAP/reference	0.96	0.624
41DAP/reference	0.98422	0.814
42DAP/reference	1.00055	0.567
43DAP/reference	1.05838	0.646
47DAP/reference	1.12145	0.167
52DAP/reference	1.06905	0.43
57DAP/reference	1.08142	0.3

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88187	0.219
27DAP/17DAP	1.02454	0.957
39DAP/27DAP	1.10308	0.534
41DAP/39DAP	0.98193	0.98
42DAP/41DAP	1.13116	0.225
43DAP/42DAP	1.06796	0.699
47DAP/43DAP	1.09518	0.359
52DAP/47DAP	1.03451	0.927
57DAP/52DAP	0.85197	0.221
57DAP/7DAP	1.12833	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25333	0.071
17DAP/reference	1.9796	0.006
27DAP/reference	1.77641	0.01
39DAP/reference	2.27296	0.006
41DAP/reference	2.42796	0.011
42DAP/reference	2.49092	0.006
43DAP/reference	1.85541	0.007
47DAP/reference	1.44467	0.145
52DAP/reference	1.96021	0.007
57DAP/reference	1.78033	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96379	0.77
17DAP/reference	1.03437	1
27DAP/reference	1.03054	0.917
39DAP/reference	0.98728	0.621
41DAP/reference	1.10253	0.394
42DAP/reference	1.05498	0.61
43DAP/reference	1.0933	0.846
47DAP/reference	0.93621	0.277
52DAP/reference	0.91576	0.131
57DAP/reference	0.93522	0.433

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.57022	0.019
17DAP/reference	1.40831	0.135
27DAP/reference	1.82686	0.023
39DAP/reference	1.32883	0.057
41DAP/reference	1.72238	0.027
42DAP/reference	1.64333	0.023
43DAP/reference	1.50235	0.057
47DAP/reference	1.06245	0.76
52DAP/reference	1.7989	0.049
57DAP/reference	1.22732	0.144

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.52268	0.56
26DAP/20DAP	0.78652	0.317
34DAP/26DAP	1.02769	1
51DAP/34DAP	0.96636	0.856
52DAP/51DAP	1.20495	0.238
53DAP/52DAP	1.05124	0.845
55DAP/53DAP	1.17309	0.629
57DAP/55DAP	1.16124	0.826
62DAP/57DAP	0.97278
68DAP/62DAP	1.05896	0.945
68DAP/14DAP	1.02954	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.04374	0.74

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.04694	0.417
Mature Green Tomato/Ripe Tomato	0.97305	0.715
Immature Eggplant/Mature Eggplant	0.91525	0.407
Ripe Pepper/Ripe Tomato	1.06789	1
Mature Eggplant/Ripe Tomato	2.48856	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.51023	0.536
1-1-2/M82	1.24499	1
12-2/M82	N/A	N/A
12-4/M82	0.67856	0.259
1-3/M82	N/A	N/A
2-1-1/M82	0.66858
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.91827
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.2362
4-3/M82	1.35351	0.268
5-3/M82	0.91558	1
6-2/M82	N/A	N/A
6-3/M82	1.20402	1
7-1/M82	0.87649
7-2/M82	1.2191	1
9-3-2/M82	0.93517

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.69249	0.243
IL2-6/WTpooled	0.98489	1
IL7-5/WTpooled	0.98035	1
IL7-3/WTpooled	0.92766	1
IL12-4/WTpooled	1.02353	0.595
IL1-4/WTpooled	0.78855	0.415
WT/WTpooled	1.03352	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	1.00666	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93388	1
DC3000/delta hrp 6h	1.25868	0.857
DC3000/delta hrp 12h	1.01762	1
DC3000/delta hrp 24h	0.48812	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.59365
DC3000 delta B/DC3000 delta AB	1.05399	0.694

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99976	1
Exp 36h	0.85842	0.426
Exp 60h	0.70834	0.258

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99401	1
Var 0h	1.20446	0.98
Var 12h I row2-row1	0.88077	0.514
Var 12h NI row2-row1	0.94539	0.906
Var 36h I row2-row1	1.06581	1
Var 36h NI row2-row1	1.30964	1
Var 60h I row2-row1	1.04846	1
Var 60h NI row2-row1	1.15463	0.904
Time course 0hI-0hNI	1.05944	0.799
Time course 12hI-12hNI	0.84275	0.176
Time course 36hI-36hNI	0.70814	0.032
Time course 60hI-60hNI	0.24523	0.005

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)	0.98984	0.789
transgenic ySAMdc/azygous control (breaker)	1.38475	0.162
transgenic ySAMdc/azygous control (red)	1.05255	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96372	0.5

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.89808	0.229

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.10056	0.083
Manapal/WT (break)	2.38135	0.126
Manapal/WT (red)	2.05472	0.142