Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.6.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95201	0.683
27DAP/17DAP	0.99708	0.967
39DAP/27DAP	0.75864	0.335
41DAP/39DAP	1.21722	0.624
42DAP/41DAP	1.45143	0.933
43DAP/42DAP	1.07272	1
47DAP/43DAP	1.0721	0.92
52DAP/47DAP	0.99404	0.942
57DAP/52DAP	0.79711	0.784

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93222	0.326
17DAP/reference	1.06958	0.154
27DAP/reference	0.92307	0.064
39DAP/reference	0.95546	0.475
41DAP/reference	0.90928	0.267
42DAP/reference	0.88255	0.029
43DAP/reference	1.0572	0.425
47DAP/reference	0.85429	0.009
52DAP/reference	0.98449	0.53
57DAP/reference	0.95138	0.324

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05366	0.961
27DAP/17DAP	0.99733	0.969
39DAP/27DAP	1.24671	0.441
41DAP/39DAP	1.23458	0.799
42DAP/41DAP	0.76069	0.583
43DAP/42DAP	1.14789	0.699
47DAP/43DAP	0.7372	0.418
52DAP/47DAP	1.05912	0.856
57DAP/52DAP	1.11814	0.913
57DAP/7DAP	1.1369	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24139	0.072
17DAP/reference	1.19331	0.006
27DAP/reference	1.23061	0.017
39DAP/reference	2.01477	0.005
41DAP/reference	1.22067	0.109
42DAP/reference	1.9025	0.006
43DAP/reference	2.59773	0.006
47DAP/reference	2.18127	0.191
52DAP/reference	2.269	0.007
57DAP/reference	1.9846	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04051	0.758
17DAP/reference	0.86596	0.075
27DAP/reference	0.85969	0.119
39DAP/reference	1.08498	0.725
41DAP/reference	0.87338	0.124
42DAP/reference	0.77587	0.013
43DAP/reference	1.03389	0.91
47DAP/reference	0.8214	0.012
52DAP/reference	0.94261	0.351
57DAP/reference	1.00978	0.789

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9648	0.422
17DAP/reference	1.08968	0.503
27DAP/reference	1.34333	0.025
39DAP/reference	1.2649	0.026
41DAP/reference	1.23104	0.019
42DAP/reference	1.43964	0.052
43DAP/reference	1.37085	0.237
47DAP/reference	0.97756	0.525
52DAP/reference	1.32582	0.201
57DAP/reference	0.85892	0.154

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.86682	0.159
26DAP/20DAP	1.75346	0.173
34DAP/26DAP	1.32883	1
51DAP/34DAP	1.78819	0.164
52DAP/51DAP	0.78905	1
53DAP/52DAP	1.14998	0.608
55DAP/53DAP	1.34577	0.782
57DAP/55DAP	N/A	N/A
62DAP/57DAP	1.31048	0.185
68DAP/62DAP	0.80236	0.135
68DAP/14DAP	1.19295	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.40452	0.627

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.90387	0.774
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.47972

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05729	1
1-1-2/M82	1.04664	1
12-2/M82	1.13623
12-4/M82	0.88906	1
1-3/M82	0.44532
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.20284	0.329
3-2/M82	1.10937
4-1-1/M82	N/A	N/A
4-1/M82	1.102
4-3-2/M82	1.03261
4-3/M82	1.11865
5-3/M82	0.94786	0.642
6-2/M82	1.37844
6-3/M82	1.26098
7-1/M82	0.92806
7-2/M82	1.18391
9-3-2/M82	0.65572	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.25738	0.516
IL1-4/WTpooled	0.92815
WT/WTpooled	N/A	N/A

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	0.93407	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.22378	1
DC3000/delta hrp 24h	1.19771	0.308

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	N/A	N/A
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	1.31653
Var 0h	1.0451	1
Var 12h I row2-row1	0.80112	0.627
Var 12h NI row2-row1	0.59778
Var 36h I row2-row1	0.80335	1
Var 36h NI row2-row1	2.83004
Var 60h I row2-row1	0.14316
Var 60h NI row2-row1	1.42717	1
Time course 0hI-0hNI	1.02679	1
Time course 12hI-12hNI	1.64736	0.052
Time course 36hI-36hNI	0.99396	0.621
Time course 60hI-60hNI	1.10479	0.673

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)	0.71805	0.529
transgenic ySAMdc/azygous control (breaker)	1.14779	0.248
transgenic ySAMdc/azygous control (red)	1.12549	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99317	0.651

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.41958	1
Manapal/WT (break)	1.24876	0.123
Manapal/WT (red)	1.20199	0.222