Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.20.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82654	0.211
27DAP/17DAP	1.4284	0.804
39DAP/27DAP	1.1316	1
41DAP/39DAP	1.18267	0.545
42DAP/41DAP	3.11623	0.488
43DAP/42DAP	1.12547	1
47DAP/43DAP	1.22111	0.776
52DAP/47DAP	1.10073	0.913
57DAP/52DAP	1.0353	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84052	0.03
17DAP/reference	0.86064	0.014
27DAP/reference	0.96519	0.552
39DAP/reference	0.98773	0.828
41DAP/reference	0.92991	0.341
42DAP/reference	0.86906	0.012
43DAP/reference	0.89023	0.049
47DAP/reference	0.97255	0.418
52DAP/reference	1.11049	0.088
57DAP/reference	1.1255	0.141

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95226	0.595
27DAP/17DAP	0.97154	0.887
39DAP/27DAP	1.11162	0.565
41DAP/39DAP	1.06874	0.883
42DAP/41DAP	0.91424	0.473
43DAP/42DAP	0.90144	0.235
47DAP/43DAP	0.9766	0.886
52DAP/47DAP	0.88743	0.66
57DAP/52DAP	0.88264	0.391
57DAP/7DAP	1.08215	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85084	0.115
17DAP/reference	0.76489	0.016
27DAP/reference	0.81854	0.03
39DAP/reference	0.66795	0.011
41DAP/reference	0.70565	0.025
42DAP/reference	0.74029	0.024
43DAP/reference	0.70366	0.013
47DAP/reference	0.82951	0.128
52DAP/reference	0.63059	0.012
57DAP/reference	0.63207	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95161	0.607
17DAP/reference	0.81794	0.036
27DAP/reference	0.81609	0.028
39DAP/reference	0.88177	0.048
41DAP/reference	0.92993	0.137
42DAP/reference	0.98337	0.534
43DAP/reference	1.08646	1
47DAP/reference	0.86923	0.038
52DAP/reference	0.87697	0.043
57DAP/reference	0.80362	0.009

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80354	0.043
17DAP/reference	0.94959	0.488
27DAP/reference	0.75563	0.031
39DAP/reference	0.74655	0.013
41DAP/reference	0.83302	0.058
42DAP/reference	0.81062	0.036
43DAP/reference	0.75291	0.023
47DAP/reference	0.90765	0.199
52DAP/reference	0.63722	0.08
57DAP/reference	1.01039	0.742

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.22353	0.966
26DAP/20DAP	0.8343	0.512
34DAP/26DAP	0.93756	0.909
51DAP/34DAP	0.78666	0.274
52DAP/51DAP	1.09414	0.503
53DAP/52DAP	1.07471	0.783
55DAP/53DAP	1.09074	0.741
57DAP/55DAP	1.09814	0.927
62DAP/57DAP	1.63555	0.8
68DAP/62DAP	1.77377	0.126
68DAP/14DAP	2.15371	0.131

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.82811	0.304

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.6774
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.55168	0.231

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91229	0.907
1-1-2/M82	0.94479	1
12-2/M82	1.25158	1
12-4/M82	1.08271	0.611
1-3/M82	0.90103	0.501
2-1-1/M82	1.31958	0.457
2-1/M82	N/A	N/A
2-6/M82	1.04836	1
3-2/M82	0.84925
4-1-1/M82	0.949	1
4-1/M82	1.22266
4-3-2/M82	0.82192
4-3/M82	0.97511	0.72
5-3/M82	1.01821	1
6-2/M82	0.99551
6-3/M82	1.04786	1
7-1/M82	1.16437
7-2/M82	0.86365	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	1.10534	0.277
IL2-6/WTpooled	1.1729	0.395
IL7-5/WTpooled	1.17576	0.792
IL7-3/WTpooled	0.81054	0.298
IL12-4/WTpooled	0.996	1
IL1-4/WTpooled	0.86895	0.834
WT/WTpooled	0.97859	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	0.99136	0.226

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09726	0.921
DC3000/delta hrp 6h	1.18991	1
DC3000/delta hrp 12h	1.17646	1
DC3000/delta hrp 24h	1.01176	0.821

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	1.14182	1
Exp 60h	1.26876	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99231	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.00471	1
Var 12h NI row2-row1	0.9969	1
Var 36h I row2-row1	1.01732	1
Var 36h NI row2-row1	1.02471	1
Var 60h I row2-row1	1.06751	1
Var 60h NI row2-row1	0.84401	0.69
Time course 0hI-0hNI	1.03989	0.719
Time course 12hI-12hNI	0.98404	0.924
Time course 36hI-36hNI	1.0829	0.128
Time course 60hI-60hNI	1.19811	0.022

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)	1.12806	0.297
transgenic ySAMdc/azygous control (breaker)	0.9078	0.49
transgenic ySAMdc/azygous control (red)	0.98558	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01914	0.334

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.69404	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.08198	1
Manapal/WT (break)	1.67906	0.126
Manapal/WT (red)	1.7035	0.222