Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.8.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06371	0.932
27DAP/17DAP	1.24255	0.728
39DAP/27DAP	0.75956	0.27
41DAP/39DAP	1.00387	0.897
42DAP/41DAP	1.08028	0.916
43DAP/42DAP	0.87854	0.787
47DAP/43DAP	1.11241	0.715
52DAP/47DAP	1.10031	0.867
57DAP/52DAP	0.9781	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.024	0.788
17DAP/reference	1.19916	0.024
27DAP/reference	1.08743	0.365
39DAP/reference	1.05941	0.343
41DAP/reference	1.20243	0.073
42DAP/reference	0.93052	0.129
43DAP/reference	1.03285	0.596
47DAP/reference	1.01646	1
52DAP/reference	0.96898	0.461
57DAP/reference	0.99794	0.701

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98914	0.763
27DAP/17DAP	0.88614	0.339
39DAP/27DAP	1.10798	0.558
41DAP/39DAP	1.0682	0.705
42DAP/41DAP	0.90484	0.37
43DAP/42DAP	0.72756	0.029
47DAP/43DAP	1.03133	0.892
52DAP/47DAP	0.98262	0.925
57DAP/52DAP	1.27769	0.335
57DAP/7DAP	1.14629	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.2745	0.124
17DAP/reference	1.22034	0.147
27DAP/reference	1.13712	0.197
39DAP/reference	1.2243	0.027
41DAP/reference	1.23607	0.064
42DAP/reference	1.2366	0.132
43DAP/reference	1.07183	0.923
47DAP/reference	1.08252	0.45
52DAP/reference	1.20656	0.062
57DAP/reference	1.24618	0.108

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03607	0.732
17DAP/reference	1.16827	0.061
27DAP/reference	0.9548	0.452
39DAP/reference	1.16161	0.401
41DAP/reference	0.96352	0.284
42DAP/reference	1.01859	1
43DAP/reference	1.02781	1
47DAP/reference	0.94477	0.319
52DAP/reference	1.21445	0.114
57DAP/reference	1.25113	0.127

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92169	0.422
17DAP/reference	1.061	0.578
27DAP/reference	1.00227	0.843
39DAP/reference	0.93807	0.36
41DAP/reference	0.92811	0.264
42DAP/reference	1.03202	1
43DAP/reference	1.00783	0.827
47DAP/reference	1.1345	0.085
52DAP/reference	0.94673	0.551
57DAP/reference	0.79411	0.086

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.85984	0.981
26DAP/20DAP	1.03031	1
34DAP/26DAP	1.20264	1
51DAP/34DAP	3.84662	0.034
52DAP/51DAP	1.24041	0.13
53DAP/52DAP	2.19464	0.083
55DAP/53DAP	1.42362	0.039
57DAP/55DAP	0.69501	0.133
62DAP/57DAP	0.73011	0.162
68DAP/62DAP	1.25257	0.259
68DAP/14DAP	1.30287	0.113

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.27474	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.8613	0.015
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.68414	1
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00334	1
1-1-2/M82	0.86153	1
12-2/M82	1.08468	1
12-4/M82	0.99789	1
1-3/M82	0.74224	0.378
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.04367	0.594
3-2/M82	0.90333	0.414
4-1-1/M82	1.10726	1
4-1/M82	0.88005	1
4-3-2/M82	0.91569	1
4-3/M82	0.77886	1
5-3/M82	0.86555	0.49
6-2/M82	1.01996
6-3/M82	1.12554	1
7-1/M82	1.1341	0.598
7-2/M82	0.7973	0.796
9-3-2/M82	0.88284	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.41827
IL2-6/WTpooled	0.89786
IL7-5/WTpooled	1.01917
IL7-3/WTpooled	0.80803
IL12-4/WTpooled	0.24458
IL1-4/WTpooled	0.97914	1
WT/WTpooled	1.18655	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	1.21596	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03612	0.914
DC3000/delta hrp 6h	0.95537	0.95
DC3000/delta hrp 12h	0.9748	1
DC3000/delta hrp 24h	0.98265	0.934

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.62721	0.042
DC3000 delta B/DC3000 delta AB	1.57015	0.081

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.14993	1
Exp 36h	1.33467	0.326
Exp 60h	1.17761	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97874	1
Var 0h	0.58173	1
Var 12h I row2-row1	0.92596	0.77
Var 12h NI row2-row1	1.22582	0.34
Var 36h I row2-row1	1.12104	1
Var 36h NI row2-row1	0.9057	0.706
Var 60h I row2-row1	0.48311	0.285
Var 60h NI row2-row1	0.82931	0.572
Time course 0hI-0hNI	1.11382	0.377
Time course 12hI-12hNI	1.04621	0.743
Time course 36hI-36hNI	2.63148	0.004
Time course 60hI-60hNI	3.40955	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)	1.04322	0.253
transgenic ySAMdc/azygous control (breaker)	1.14784	0.166
transgenic ySAMdc/azygous control (red)	0.86102	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9802	0.471

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.00104	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.10183	1
Manapal/WT (break)	0.86739	1
Manapal/WT (red)	0.99602	1