Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.16.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01097	0.891
27DAP/17DAP	0.90635	0.804
39DAP/27DAP	0.73155	0.482
41DAP/39DAP	1.13698	0.349
42DAP/41DAP	0.94958	1
43DAP/42DAP	1.02388	1
47DAP/43DAP	0.95278	0.773
52DAP/47DAP	0.93643	0.769
57DAP/52DAP	1.20647	0.894

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92655	0.205
17DAP/reference	1.01598	0.717
27DAP/reference	1.04337	0.277
39DAP/reference	1.06661	0.474
41DAP/reference	1.01128	0.91
42DAP/reference	0.92878	0.045
43DAP/reference	1.00803	0.982
47DAP/reference	1.00784	1
52DAP/reference	0.92619	0.093
57DAP/reference	1.04694	0.564

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93223	0.56
27DAP/17DAP	1.13641	0.872
39DAP/27DAP	0.97677	0.859
41DAP/39DAP	1.09764	0.876
42DAP/41DAP	1.15506	0.991
43DAP/42DAP	1.09735	1
47DAP/43DAP	1.11005	0.805
52DAP/47DAP	1.37116	0.258
57DAP/52DAP	1.11368	0.507
57DAP/7DAP	0.70257	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89021	0.146
17DAP/reference	1.08271	0.297
27DAP/reference	1.02449	0.804
39DAP/reference	0.96433	0.411
41DAP/reference	0.9554	0.394
42DAP/reference	0.83959	0.048
43DAP/reference	0.87913	0.061
47DAP/reference	0.8225	0.05
52DAP/reference	0.91381	0.196
57DAP/reference	0.92425	0.114

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97033	0.532
17DAP/reference	0.94232	0.159
27DAP/reference	0.91333	0.144
39DAP/reference	0.9656	0.339
41DAP/reference	1.01073	1
42DAP/reference	0.90949	0.032
43DAP/reference	1.04665	0.777
47DAP/reference	0.89043	0.062
52DAP/reference	1.02562	0.528
57DAP/reference	1.03767	0.567

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94188	0.362
17DAP/reference	0.93067	0.374
27DAP/reference	1.05319	0.131
39DAP/reference	0.91367	0.046
41DAP/reference	1.06174	0.754
42DAP/reference	0.92594	0.445
43DAP/reference	0.98935	0.685
47DAP/reference	0.93005	0.259
52DAP/reference	0.88132	0.167
57DAP/reference	0.80736	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99488	1
26DAP/20DAP	0.81945	1
34DAP/26DAP	3.47176
51DAP/34DAP	N/A	N/A
52DAP/51DAP	1.63011	0.261
53DAP/52DAP	0.71528	0.221
55DAP/53DAP	0.99245	0.864
57DAP/55DAP	1.02301	0.71
62DAP/57DAP	0.83798	0.466
68DAP/62DAP	1.05308	0.869
68DAP/14DAP	0.96539	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.76268	0.358

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.89869
Mature Green Tomato/Ripe Tomato	0.85865	0.377
Immature Eggplant/Mature Eggplant	1.51166	0.142
Ripe Pepper/Ripe Tomato	0.92017	1
Mature Eggplant/Ripe Tomato	0.25172

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.64222
12-2/M82	N/A	N/A
12-4/M82	0.66201
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	0.83585	1
4-3-2/M82	0.95565	1
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.86006
7-2/M82	N/A	N/A
9-3-2/M82	0.94345	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.5891	0.383
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.07988	1
IL12-4/WTpooled	1.261	0.532
IL1-4/WTpooled	0.91768
WT/WTpooled	0.9751	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	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	1.16828
DC3000/delta hrp 6h	1.1753	1
DC3000/delta hrp 12h	0.9498	1
DC3000/delta hrp 24h	N/A	N/A

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	0.97515	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02687	0.254
Exp 36h	1.30761	1
Exp 60h	1.11504	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00416
Var 0h	0.61222	1
Var 12h I row2-row1	0.9235	0.77
Var 12h NI row2-row1	0.93501	0.906
Var 36h I row2-row1	1.05643
Var 36h NI row2-row1	0.62132	0.743
Var 60h I row2-row1	0.8912
Var 60h NI row2-row1	0.98293	1
Time course 0hI-0hNI	1.28959	0.344
Time course 12hI-12hNI	0.93221	0.637
Time course 36hI-36hNI	0.90356	0.274
Time course 60hI-60hNI	2.4595	0.025

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)	0.96959	0.614
transgenic ySAMdc/azygous control (breaker)	1.50769	0.178
transgenic ySAMdc/azygous control (red)	1.23195	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98494	0.383

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.98264	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.93847	1
Manapal/WT (break)	0.66268	0.299
Manapal/WT (red)	N/A	N/A