Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.17.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15173	0.534
27DAP/17DAP	0.69871	0.359
39DAP/27DAP	1.1889	1
41DAP/39DAP	1.74191	0.222
42DAP/41DAP	0.99206	1
43DAP/42DAP	1.00009	0.931
47DAP/43DAP	1.24403	0.595
52DAP/47DAP	0.93486	0.721
57DAP/52DAP	0.98659	0.974

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86017	0.118
17DAP/reference	0.95542	0.536
27DAP/reference	1.00404	0.904
39DAP/reference	0.90721	0.083
41DAP/reference	0.85614	0.114
42DAP/reference	0.95265	0.124
43DAP/reference	0.91952	0.084
47DAP/reference	0.87697	0.005
52DAP/reference	0.92131	0.258
57DAP/reference	0.97885	0.526

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18647	0.87
27DAP/17DAP	1.22477	0.836
39DAP/27DAP	1.00538	1
41DAP/39DAP	0.88213	0.98
42DAP/41DAP	0.85751	0.548
43DAP/42DAP	0.79929
47DAP/43DAP	1.06794	0.772
52DAP/47DAP	1.23254	0.975
57DAP/52DAP	1.21141	0.584
57DAP/7DAP	1.31803	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00617	1
17DAP/reference	1.08515	0.822
27DAP/reference	1.05743	0.804
39DAP/reference	0.94467	0.411
41DAP/reference	0.99064	0.677
42DAP/reference	1.0869	0.534
43DAP/reference	1.07409	0.873
47DAP/reference	0.90696	0.383
52DAP/reference	0.99213	0.621
57DAP/reference	1.11485	0.468

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83711	0.049
17DAP/reference	0.88106	0.129
27DAP/reference	0.81787	0.045
39DAP/reference	0.87143	0.091
41DAP/reference	0.8558	0.026
42DAP/reference	0.87586	0.073
43DAP/reference	0.85664	0.121
47DAP/reference	0.9195	0.11
52DAP/reference	0.92632	0.156
57DAP/reference	0.87001	0.135

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99068	0.455
17DAP/reference	1.15863	0.443
27DAP/reference	1.45107	0.044
39DAP/reference	0.94358	0.504
41DAP/reference	1.30433	0.257
42DAP/reference	0.88921	0.361
43DAP/reference	0.87511	0.216
47DAP/reference	0.87555	0.01
52DAP/reference	1.40785	0.601
57DAP/reference	0.9888	0.693

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.10663	0.966
26DAP/20DAP	N/A	N/A
34DAP/26DAP	1.28357	0.542
51DAP/34DAP	1.15867	0.898
52DAP/51DAP	0.80836	0.151
53DAP/52DAP	1.14446	0.895
55DAP/53DAP	1.006	0.908
57DAP/55DAP	1.2224	0.71
62DAP/57DAP	1.10787	0.8
68DAP/62DAP	1.13426	0.523
68DAP/14DAP	1.12227	0.594

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.14725

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	8.82457
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	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.17867
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	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	N/A	N/A
5-3/M82	0.93832
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.84858
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.77754	0.247
IL2-6/WTpooled	1.21221	0.427
IL7-5/WTpooled	0.80962	1
IL7-3/WTpooled	0.96931	1
IL12-4/WTpooled	1.10284	0.557
IL1-4/WTpooled	1.05125	1
WT/WTpooled	1.07831	0.818

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95735	1
DC3000/delta hrp 6h	1.06491	1
DC3000/delta hrp 12h	0.92008	1
DC3000/delta hrp 24h	1.07057	0.673

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	0.92809	1
Exp 36h	0.37295	0.449
Exp 60h	0.51296	0.29

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.21537	0.594
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	0.6702	0.546
Var 36h I row2-row1	0.96612
Var 36h NI row2-row1	0.60042	1
Var 60h I row2-row1	0.81748
Var 60h NI row2-row1	1.05892	1
Time course 0hI-0hNI	1.5966
Time course 12hI-12hNI	1.05048	0.774
Time course 36hI-36hNI	0.25327	0.023
Time course 60hI-60hNI	3.14132	0.16

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)	1.13819	0.863
transgenic ySAMdc/azygous control (breaker)	2.784	0.178
transgenic ySAMdc/azygous control (red)	0.98062	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	2.20642	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	4.86844	0.105
Manapal/WT (break)	2.94085	0.13
Manapal/WT (red)	1.18684	1