Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.17.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9582	0.64
27DAP/17DAP	1.03532	0.895
39DAP/27DAP	1.24497	1
41DAP/39DAP	1.04405	0.78
42DAP/41DAP	1.30104	0.903
43DAP/42DAP	0.87635	0.765
47DAP/43DAP	1.33982	0.873
52DAP/47DAP	0.74407	0.37
57DAP/52DAP	1.14188	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03451	0.587
17DAP/reference	1.00038	0.904
27DAP/reference	1.01212	0.934
39DAP/reference	1.23355	0.051
41DAP/reference	1.14873	0.041
42DAP/reference	0.96737	0.218
43DAP/reference	1.01593	0.982
47DAP/reference	0.97946	0.445
52DAP/reference	1.03143	0.991
57DAP/reference	0.96189	0.395

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20545	0.135
27DAP/17DAP	1.09701	0.604
39DAP/27DAP	1.16391	0.337
41DAP/39DAP	0.999	1
42DAP/41DAP	0.981	0.776
43DAP/42DAP	1.1567	0.079
47DAP/43DAP	1.14702	0.262
52DAP/47DAP	1.05924	0.883
57DAP/52DAP	0.8537	0.364
57DAP/7DAP	1.41365	0.193

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74652	0.078
17DAP/reference	0.87131	0.056
27DAP/reference	1.00425	0.748
39DAP/reference	0.92042	0.264
41DAP/reference	0.9907	0.589
42DAP/reference	0.94317	0.338
43DAP/reference	0.79276	0.014
47DAP/reference	0.84707	0.293
52DAP/reference	0.72731	0.02
57DAP/reference	0.8839	0.056

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04703	0.758
17DAP/reference	1.06645	0.708
27DAP/reference	0.96216	0.438
39DAP/reference	0.90595	0.173
41DAP/reference	1.29311	0.427
42DAP/reference	1.30687	0.24
43DAP/reference	1.29121	0.324
47DAP/reference	1.07522	0.527
52DAP/reference	1.38327	0.014
57DAP/reference	1.17404	0.252

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87539	0.082
17DAP/reference	0.95548	0.499
27DAP/reference	0.83989	0.089
39DAP/reference	0.99277	0.755
41DAP/reference	1.0947	0.637
42DAP/reference	0.98255	0.671
43DAP/reference	0.80958	0.102
47DAP/reference	1.16088	0.042
52DAP/reference	0.87228	0.289
57DAP/reference	0.99523	0.661

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00444	1
26DAP/20DAP	1.15201	0.558
34DAP/26DAP	1.21401	1
51DAP/34DAP	0.83944	0.504
52DAP/51DAP	0.90911	1
53DAP/52DAP	1.041	0.797
55DAP/53DAP	1.09659	0.693
57DAP/55DAP	1.09758	0.906
62DAP/57DAP	0.95078	0.994
68DAP/62DAP	0.76737	0.245
68DAP/14DAP	0.85453	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.47895	0.306

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.37667	0.209
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.04785
Mature Eggplant/Ripe Tomato	0.56367	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.07705	1
1-1-2/M82	1.31257
12-2/M82	N/A	N/A
12-4/M82	1.24065	1
1-3/M82	0.71558	0.501
2-1-1/M82	0.80555
2-1/M82	N/A	N/A
2-6/M82	0.96928	1
3-2/M82	0.68565
4-1-1/M82	0.69774
4-1/M82	2.06308
4-3-2/M82	0.87371
4-3/M82	N/A	N/A
5-3/M82	1.06383	1
6-2/M82	N/A	N/A
6-3/M82	1.42182	1
7-1/M82	N/A	N/A
7-2/M82	0.74169	0.796
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.92353	0.247
IL2-6/WTpooled	0.96736	1
IL7-5/WTpooled	0.85606	1
IL7-3/WTpooled	0.9107	0.418
IL12-4/WTpooled	0.99664	1
IL1-4/WTpooled	1.10485	1
WT/WTpooled	0.97009	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	0.97555	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97799	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.17343	1
DC3000/delta hrp 24h	0.93187	0.513

Experiment: DC3000 effector mutants

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

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.41872	1
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96218	1
Var 0h	0.99505	1
Var 12h I row2-row1	1.21925	0.216
Var 12h NI row2-row1	0.84889	0.713
Var 36h I row2-row1	0.98203	1
Var 36h NI row2-row1	1.01194	1
Var 60h I row2-row1	1.16922	0.487
Var 60h NI row2-row1	1.09953	1
Time course 0hI-0hNI	0.96868	0.849
Time course 12hI-12hNI	0.84406	0.586
Time course 36hI-36hNI	1.1056	0.722
Time course 60hI-60hNI	0.72161	0.026

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)	1.34378	0.331
transgenic ySAMdc/azygous control (breaker)	1.0296	1
transgenic ySAMdc/azygous control (red)	0.98224	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.01109	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.0945	0.093
Manapal/WT (break)	1.52478	0.381
Manapal/WT (red)	1.69627	0.222