Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.9.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09536	0.588
27DAP/17DAP	0.91952	0.839
39DAP/27DAP	1.62297	0.335
41DAP/39DAP	1.2785	0.342
42DAP/41DAP	1.13076	0.871
43DAP/42DAP	0.81599	0.454
47DAP/43DAP	1.18681	0.746
52DAP/47DAP	1.31699	0.53
57DAP/52DAP	0.81366	0.681

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05341	0.846
17DAP/reference	1.0579	0.166
27DAP/reference	0.96213	0.444
39DAP/reference	0.98774	0.762
41DAP/reference	1.05996	0.221
42DAP/reference	0.98754	0.398
43DAP/reference	1.06069	0.495
47DAP/reference	0.94122	0.106
52DAP/reference	0.84875	0.051
57DAP/reference	0.84918	0.036

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00218	1
27DAP/17DAP	1.01153	0.968
39DAP/27DAP	1.0758	0.359
41DAP/39DAP	1.06758	0.763
42DAP/41DAP	1.02359	0.947
43DAP/42DAP	1.08959	0.052
47DAP/43DAP	0.98046	0.919
52DAP/47DAP	0.99642	0.962
57DAP/52DAP	0.96565	0.584
57DAP/7DAP	1.01136	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88842	0.072
17DAP/reference	0.95281	0.253
27DAP/reference	0.86363	0.017
39DAP/reference	0.9409	0.126
41DAP/reference	0.89178	0.038
42DAP/reference	0.90993	0.022
43DAP/reference	0.93372	0.095
47DAP/reference	0.8394	0.044
52DAP/reference	0.85545	0.028
57DAP/reference	0.88409	0.021

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14383	0.097
17DAP/reference	1.02743	0.874
27DAP/reference	0.92179	0.229
39DAP/reference	0.97919	0.509
41DAP/reference	0.87681	0.164
42DAP/reference	0.86392	0.055
43DAP/reference	1.06225	0.719
47DAP/reference	0.92219	0.102
52DAP/reference	0.96148	0.302
57DAP/reference	1.20575	0.166

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98336	0.607
17DAP/reference	0.98331	0.668
27DAP/reference	1.03086	0.596
39DAP/reference	0.95478	0.163
41DAP/reference	1.02445	1
42DAP/reference	0.78294	0.087
43DAP/reference	0.84664	0.188
47DAP/reference	1.02031	1
52DAP/reference	0.87801	0.262
57DAP/reference	0.61426	0.031

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05057	0.966
26DAP/20DAP	0.94739	1
34DAP/26DAP	1.005	1
51DAP/34DAP	0.93206	0.546
52DAP/51DAP	0.99406	1
53DAP/52DAP	1.03642	0.91
55DAP/53DAP	1.04827	0.656
57DAP/55DAP	1.00755	1
62DAP/57DAP	1.07181	0.8
68DAP/62DAP	0.94968	0.722
68DAP/14DAP	0.78876	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.05527	0.663

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.77269	0.377
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.11711
Mature Eggplant/Ripe Tomato	0.90376	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97101	0.944
1-1-2/M82	0.96554	1
12-2/M82	1.08847	1
12-4/M82	1.03224	1
1-3/M82	0.85904	0.441
2-1-1/M82	N/A	N/A
2-1/M82	1.25689
2-6/M82	1.1464	0.695
3-2/M82	0.89752
4-1-1/M82	0.91874	1
4-1/M82	N/A	N/A
4-3-2/M82	1.04762
4-3/M82	0.7351	0.72
5-3/M82	0.99801	1
6-2/M82	0.77289
6-3/M82	0.94977	0.982
7-1/M82	0.91165	0.803
7-2/M82	1.12445	0.385
9-3-2/M82	1.0288

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.74897	0.321
IL2-6/WTpooled	1.33625	0.441
IL7-5/WTpooled	1.26278	0.792
IL7-3/WTpooled	1.28098	1
IL12-4/WTpooled	1.11539	0.673
IL1-4/WTpooled	0.78475	0.562
WT/WTpooled	1.21606	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	1.01569	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00041	1
DC3000/delta hrp 6h	0.83866	0.95
DC3000/delta hrp 12h	1.17205	1
DC3000/delta hrp 24h	0.9964	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.02279	0.598
DC3000 delta B/DC3000 delta AB	1.05505	0.51

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.22715	1
Exp 36h	1.03265	1
Exp 60h	1.16655	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0034	1
Var 0h	1.06261	0.936
Var 12h I row2-row1	0.99882	1
Var 12h NI row2-row1	0.94163	0.627
Var 36h I row2-row1	0.98276	1
Var 36h NI row2-row1	0.97639	0.743
Var 60h I row2-row1	1.01747	0.543
Var 60h NI row2-row1	1.07679	0.904
Time course 0hI-0hNI	1.06885	0.486
Time course 12hI-12hNI	0.96682	0.568
Time course 36hI-36hNI	1.01716	0.881
Time course 60hI-60hNI	1.10273	0.216

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)	0.88081	0.362
transgenic ySAMdc/azygous control (breaker)	1.2475	0.248
transgenic ySAMdc/azygous control (red)	1.11615	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00426	0.766

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.40214	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.32327	0.105
Manapal/WT (break)	1.41897	0.381
Manapal/WT (red)	1.36013	0.164