Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.11.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.69746	0.178
27DAP/17DAP	0.92626	0.851
39DAP/27DAP	2.2867	0.123
41DAP/39DAP	1.39887	0.387
42DAP/41DAP	1.11673	0.852
43DAP/42DAP	0.84279	0.71
47DAP/43DAP	1.25167	0.463
52DAP/47DAP	0.52117	0.042
57DAP/52DAP	0.87052	0.845

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0037	0.771
17DAP/reference	0.86914	0.018
27DAP/reference	0.92329	0.098
39DAP/reference	0.9765	0.691
41DAP/reference	0.98269	0.667
42DAP/reference	0.95805	0.233
43DAP/reference	1.18087	0.01
47DAP/reference	1.02116	0.989
52DAP/reference	0.84043	0.062
57DAP/reference	0.91755	0.165

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.44978	0.036
27DAP/17DAP	0.89492	0.854
39DAP/27DAP	2.2666	0.045
41DAP/39DAP	1.41309	0.084
42DAP/41DAP	1.11802	0.46
43DAP/42DAP	1.03789	0.478
47DAP/43DAP	1.15787	0.024
52DAP/47DAP	0.70772	0.109
57DAP/52DAP	0.60179	0.102
57DAP/7DAP	0.88301	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.36302	0.03
17DAP/reference	0.93757	0.167
27DAP/reference	0.95729	0.215
39DAP/reference	0.82015	0.027
41DAP/reference	0.74668	0.026
42DAP/reference	0.8129	0.023
43DAP/reference	0.84075	0.121
47DAP/reference	0.96263	0.504
52DAP/reference	0.76996	0.038
57DAP/reference	0.74037	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21331	0.848
17DAP/reference	0.70388	0.004
27DAP/reference	1.98204	0.781
39DAP/reference	0.70367	0.039
41DAP/reference	0.78756	0.096
42DAP/reference	0.87125	0.073
43DAP/reference	0.90751	0.385
47DAP/reference	1.18033	0.413
52DAP/reference	0.50265	0.009
57DAP/reference	0.93045	0.338

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25478	0.112
17DAP/reference	0.86937	0.47
27DAP/reference	0.91218	0.195
39DAP/reference	0.98777	0.693
41DAP/reference	0.86426	0.077
42DAP/reference	0.83457	0.087
43DAP/reference	0.9837	0.639
47DAP/reference	0.68634	0.033
52DAP/reference	0.8825	0.433
57DAP/reference	0.68169	0.019

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.2121	0.916
26DAP/20DAP	1.17822	0.615
34DAP/26DAP	1.16181	1
51DAP/34DAP	1.76326	0.171
52DAP/51DAP	0.76426	0.151
53DAP/52DAP	1.54422	0.03
55DAP/53DAP	0.67171	0.041
57DAP/55DAP	1.01946	0.975
62DAP/57DAP	1.10628	0.902
68DAP/62DAP	0.73727	0.152
68DAP/14DAP	0.88648	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	3.23515	0.015

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.03952	0.06
Mature Green Tomato/Ripe Tomato	0.57235	0.025
Immature Eggplant/Mature Eggplant	6.27419	0.05
Ripe Pepper/Ripe Tomato	2.0409	0.258
Mature Eggplant/Ripe Tomato	0.19629	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03074	0.877
1-1-2/M82	1.16386	1
12-2/M82	1.14324	1
12-4/M82	1.04486	1
1-3/M82	1.88142	0.277
2-1-1/M82	1.29202	0.689
2-1/M82	1.15866
2-6/M82	1.87874	0.374
3-2/M82	0.8792
4-1-1/M82	1.51363	0.968
4-1/M82	0.98615
4-3-2/M82	1.23482	0.284
4-3/M82	1.3488	1
5-3/M82	0.9125	1
6-2/M82	1.69326
6-3/M82	1.27006	1
7-1/M82	0.77939	0.509
7-2/M82	1.12669	0.318
9-3-2/M82	2.35773	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.75867	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.17682	1
IL12-4/WTpooled	1.01792	0.891
IL1-4/WTpooled	1.07329	1
WT/WTpooled	0.93258	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	1.51705	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.83233
DC3000/delta hrp 6h	0.95445	0.95
DC3000/delta hrp 12h	1.07858	1
DC3000/delta hrp 24h	2.14395	0.03

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	1.20608	1
Exp 36h	3.11412	0.489
Exp 60h	1.64757	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94961	1
Var 0h	0.82578	0.936
Var 12h I row2-row1	1.5421	0.222
Var 12h NI row2-row1	1.19473	0.34
Var 36h I row2-row1	1.36728	0.291
Var 36h NI row2-row1	0.81496	0.706
Var 60h I row2-row1	1.05819	1
Var 60h NI row2-row1	0.75406	0.516
Time course 0hI-0hNI	1.29968	0.603
Time course 12hI-12hNI	4.24868	0.005
Time course 36hI-36hNI	5.03676	0.005
Time course 60hI-60hNI	28.269	0.008

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)	0.89997	0.314
transgenic ySAMdc/azygous control (breaker)	1.22524	0.248
transgenic ySAMdc/azygous control (red)	0.84183	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98394	0.404

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.40466	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.70113	0.333
Manapal/WT (red)	0.83025	0.242