Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.14.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.7861	0.244
27DAP/17DAP	0.77605	0.442
39DAP/27DAP	1.45366	0.2
41DAP/39DAP	1.15098	0.584
42DAP/41DAP	0.7045	0.774
43DAP/42DAP	0.99054	0.925
47DAP/43DAP	0.92485	0.701
52DAP/47DAP	0.66257	0.345
57DAP/52DAP	1.44005	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20538	0.085
17DAP/reference	0.84474	0.016
27DAP/reference	0.93849	0.395
39DAP/reference	0.8858	0.11
41DAP/reference	0.81924	0.026
42DAP/reference	0.75992	0.001
43DAP/reference	0.77762	0.027
47DAP/reference	0.88969	0.071
52DAP/reference	0.90939	0.158
57DAP/reference	1.15631	0.033

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.70566	0.044
27DAP/17DAP	1.35203	0.055
39DAP/27DAP	0.78111	0.079
41DAP/39DAP	0.98712	1
42DAP/41DAP	1.14083	0.55
43DAP/42DAP	0.58324	0.025
47DAP/43DAP	1.18475	0.172
52DAP/47DAP	0.85747	0.164
57DAP/52DAP	1.27668	0.159
57DAP/7DAP	0.95829

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97081	0.495
17DAP/reference	0.87427	0.056
27DAP/reference	0.83927	0.016
39DAP/reference	0.90859	0.043
41DAP/reference	0.89329	0.153
42DAP/reference	0.8688	0.044
43DAP/reference	0.70822	0.012
47DAP/reference	0.94657	0.504
52DAP/reference	0.72458	0.017
57DAP/reference	0.68057	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19373	0.139
17DAP/reference	0.84013	0.013
27DAP/reference	0.88483	0.134
39DAP/reference	0.84624	0.132
41DAP/reference	0.8041	0.034
42DAP/reference	1.00096	0.655
43DAP/reference	0.88253	0.157
47DAP/reference	0.91077	0.129
52DAP/reference	0.67252	0.005
57DAP/reference	0.63723	0.017

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15182	0.176
17DAP/reference	0.92217	0.234
27DAP/reference	0.8172	0.031
39DAP/reference	0.98334	0.643
41DAP/reference	0.80911	0.04
42DAP/reference	0.78862	0.015
43DAP/reference	0.79702	0.054
47DAP/reference	0.68888	0.007
52DAP/reference	0.70779	0.061
57DAP/reference	0.77531	0.064

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97416	1
26DAP/20DAP	0.87242	0.512
34DAP/26DAP	0.90637	0.795
51DAP/34DAP	1.2576	0.215
52DAP/51DAP	0.78056	0.151
53DAP/52DAP	1.32675	0.085
55DAP/53DAP	1.33253	0.073
57DAP/55DAP	1.03305	1
62DAP/57DAP	0.47316	0.002
68DAP/62DAP	1.69422	0.214
68DAP/14DAP	1.19682	0.714

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.83681	0.115

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.04273	0.417
Mature Green Tomato/Ripe Tomato	4.72191	0.015
Immature Eggplant/Mature Eggplant	1.49096	0.055
Ripe Pepper/Ripe Tomato	5.0886	0.256
Mature Eggplant/Ripe Tomato	5.51524	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97061	0.944
1-1-2/M82	0.8615	0.958
12-2/M82	N/A	N/A
12-4/M82	1.03936	0.655
1-3/M82	0.82636	0.441
2-1-1/M82	1.14929	0.439
2-1/M82	N/A	N/A
2-6/M82	0.9674	1
3-2/M82	0.83859
4-1-1/M82	0.97943	1
4-1/M82	1.44276
4-3-2/M82	0.87303
4-3/M82	1.0035	1
5-3/M82	1.05697	1
6-2/M82	0.88707	1
6-3/M82	0.9817	1
7-1/M82	0.8634
7-2/M82	1.01001	1
9-3-2/M82	0.87924

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.63906	0.277
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.42722	0.587
IL7-3/WTpooled	1.08747
IL12-4/WTpooled	1.29948	0.546
IL1-4/WTpooled	0.92976	0.834
WT/WTpooled	1.00106	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	0.84221	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98024	1
DC3000/delta hrp 6h	1.25162	0.582
DC3000/delta hrp 12h	0.62228	1
DC3000/delta hrp 24h	2.26502	0.026

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.05647	0.408
DC3000 delta B/DC3000 delta AB	1.0081	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.21774	1
Exp 36h	0.66408	0.406
Exp 60h	0.74299	0.259

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01597	1
Var 0h	1.11845	0.936
Var 12h I row2-row1	1.26649	0.406
Var 12h NI row2-row1	0.79581	0.427
Var 36h I row2-row1	1.08224	1
Var 36h NI row2-row1	1.10463	0.276
Var 60h I row2-row1	0.96063	0.952
Var 60h NI row2-row1	1.06314	0.904
Time course 0hI-0hNI	0.96739	0.843
Time course 12hI-12hNI	0.91735	0.568
Time course 36hI-36hNI	0.74112	0.023
Time course 60hI-60hNI	0.51637	0.007

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)	0.99214	0.862
transgenic ySAMdc/azygous control (breaker)	0.7653	0.15
transgenic ySAMdc/azygous control (red)	0.85398	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0106	0.619

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.93869	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.19977	0.307
Manapal/WT (break)	0.8899	1
Manapal/WT (red)	0.88236	0.503