Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.14.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.75993	0.114
27DAP/17DAP	0.86477	0.589
39DAP/27DAP	0.88461	0.583
41DAP/39DAP	0.99185	0.925
42DAP/41DAP	1.07466	1
43DAP/42DAP	1.13548	1
47DAP/43DAP	1.24702	0.633
52DAP/47DAP	0.97603	0.799
57DAP/52DAP	1.16904	0.963

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29021	0.02
17DAP/reference	1.14412	0.089
27DAP/reference	1.04444	0.339
39DAP/reference	1.1002	0.413
41DAP/reference	1.34993	0.014
42DAP/reference	1.41157	0.001
43DAP/reference	1.02393	0.928
47DAP/reference	1.26907	0.002
52DAP/reference	1.30471	0.017
57DAP/reference	1.32002	0.28

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.75743	0.085
27DAP/17DAP	0.95184	0.821
39DAP/27DAP	0.71711	0.068
41DAP/39DAP	0.54258	0.034
42DAP/41DAP	1.00711	0.899
43DAP/42DAP	1.37266	0.021
47DAP/43DAP	0.84485	0.042
52DAP/47DAP	0.89473	0.24
57DAP/52DAP	0.96281	0.716
57DAP/7DAP	0.6278	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99205	0.682
17DAP/reference	0.85041	0.082
27DAP/reference	0.85235	0.082
39DAP/reference	0.88505	0.034
41DAP/reference	0.93675	0.311
42DAP/reference	0.86513	0.189
43DAP/reference	0.99525	0.637
47DAP/reference	1.08226	0.67
52DAP/reference	1.00904	0.802
57DAP/reference	1.10265	0.468

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.41625	0.072
17DAP/reference	1.83833	0.009
27DAP/reference	1.46672	0.026
39DAP/reference	1.67744	0.011
41DAP/reference	1.51077	0.006
42DAP/reference	1.64253	0.008
43DAP/reference	1.32326	0.485
47DAP/reference	1.47925	0.008
52DAP/reference	1.70078	0.006
57DAP/reference	1.72116	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84168	0.087
17DAP/reference	1.06513	0.814
27DAP/reference	1.02959	0.644
39DAP/reference	1.05499	0.451
41DAP/reference	0.81186	0.058
42DAP/reference	1.00865	0.816
43DAP/reference	1.3078	0.336
47DAP/reference	1.17242	0.388
52DAP/reference	1.02058	0.941
57DAP/reference	1.15732	0.531

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94339	1
26DAP/20DAP	0.88266	0.512
34DAP/26DAP	0.96067	0.803
51DAP/34DAP	0.73046	0.094
52DAP/51DAP	1.03252	0.904
53DAP/52DAP	0.85641	0.212
55DAP/53DAP	0.95278	0.698
57DAP/55DAP	1.091	0.87
62DAP/57DAP	1.10643	1
68DAP/62DAP	0.73843	0.314
68DAP/14DAP	0.60594	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.60563	0.029

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.80329	0.058
Immature Eggplant/Mature Eggplant	0.96355
Ripe Pepper/Ripe Tomato	1.14843	1
Mature Eggplant/Ripe Tomato	0.72518

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.01678
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	0.84206
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.0191	1
4-3/M82	N/A	N/A
5-3/M82	1.41582
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.83566
7-2/M82	N/A	N/A
9-3-2/M82	1.12137

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.99822	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.03698	1
IL12-4/WTpooled	1.02584	1
IL1-4/WTpooled	0.92734	0.834
WT/WTpooled	1.00416	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	1.11379	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03749	0.921
DC3000/delta hrp 6h	0.7615	0.95
DC3000/delta hrp 12h	1.22969	1
DC3000/delta hrp 24h	1.12597	0.37

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.54126	0.024
DC3000 delta B/DC3000 delta AB	0.54991	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.11575	1
Exp 36h	1.02993	1
Exp 60h	1.00214	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0244	1
Var 0h	0.54157	0.98
Var 12h I row2-row1	0.81787	0.338
Var 12h NI row2-row1	0.89711	0.82
Var 36h I row2-row1	1.22956	0.309
Var 36h NI row2-row1	1.22571	1
Var 60h I row2-row1	0.9063	0.439
Var 60h NI row2-row1	1.03156	1
Time course 0hI-0hNI	1.10008	0.662
Time course 12hI-12hNI	0.95408	0.668
Time course 36hI-36hNI	0.91186	0.08
Time course 60hI-60hNI	0.31436	0.005

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)	0.91456	0.454
transgenic ySAMdc/azygous control (breaker)	0.90744	0.49
transgenic ySAMdc/azygous control (red)	1.00527	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.74487	0.042

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.66256	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.93446	1
Manapal/WT (break)	1.06757	1
Manapal/WT (red)	1.43888	0.222