Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.20.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00121	0.911
27DAP/17DAP	1.37882	0.793
39DAP/27DAP	0.8634	0.529
41DAP/39DAP	1.4357	0.282
42DAP/41DAP	1.2138	0.967
43DAP/42DAP	2.27231	0.867
47DAP/43DAP	1.00305	0.895
52DAP/47DAP	0.93602	0.793
57DAP/52DAP	1.1556	0.735

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88371	0.277
17DAP/reference	0.9681	0.474
27DAP/reference	0.92171	0.152
39DAP/reference	0.99882	0.975
41DAP/reference	1.02602	0.855
42DAP/reference	0.92991	0.045
43DAP/reference	1.00638	0.957
47DAP/reference	0.90558	0.016
52DAP/reference	0.87255	0.086
57DAP/reference	0.77896	0.017

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97945	0.716
27DAP/17DAP	0.99745	0.969
39DAP/27DAP	1.05613	0.643
41DAP/39DAP	1.10737	0.876
42DAP/41DAP	1.08849	0.526
43DAP/42DAP	1.01747	1
47DAP/43DAP	1.09274	0.432
52DAP/47DAP	0.9786	0.917
57DAP/52DAP	0.976	0.73
57DAP/7DAP	1.01016	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97885	0.495
17DAP/reference	1.04207	0.123
27DAP/reference	0.97313	0.375
39DAP/reference	0.94678	0.013
41DAP/reference	0.85838	0.023
42DAP/reference	0.94156	0.304
43DAP/reference	0.91284	0.091
47DAP/reference	0.89453	0.293
52DAP/reference	0.8666	0.097
57DAP/reference	0.86352	0.031

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97673	0.706
17DAP/reference	0.86275	0.031
27DAP/reference	0.82332	0.035
39DAP/reference	0.75065	0.01
41DAP/reference	0.85968	0.059
42DAP/reference	0.82276	0.016
43DAP/reference	0.96128	0.486
47DAP/reference	0.89345	0.025
52DAP/reference	0.8912	0.007
57DAP/reference	0.87708	0.032

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99572	0.75
17DAP/reference	1.00424	0.934
27DAP/reference	1.037	0.284
39DAP/reference	1.0257	0.353
41DAP/reference	0.96089	0.417
42DAP/reference	0.94559	0.445
43DAP/reference	0.95895	0.449
47DAP/reference	0.87235	0.093
52DAP/reference	0.97303	0.637
57DAP/reference	0.74231	0.019

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02031	1
26DAP/20DAP	0.96877	1
34DAP/26DAP	1.04986	1
51DAP/34DAP	0.99578	0.924
52DAP/51DAP	0.96492	1
53DAP/52DAP	1.02231	0.944
55DAP/53DAP	0.98224	0.838
57DAP/55DAP	0.74654	0.194
62DAP/57DAP	0.95906	0.871
68DAP/62DAP	1.02747	0.939
68DAP/14DAP	0.84175	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.8897	0.253

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.19118	0.062
Mature Green Tomato/Ripe Tomato	1.00184
Immature Eggplant/Mature Eggplant	0.57363	0.063
Ripe Pepper/Ripe Tomato	9.59492	0.258
Mature Eggplant/Ripe Tomato	4.55119	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.92349	0.944
1-1-2/M82	0.92396	1
12-2/M82	1.05169	1
12-4/M82	1.02105	1
1-3/M82	0.91277	0.501
2-1-1/M82	1.11915	1
2-1/M82	0.98004
2-6/M82	0.96907	1
3-2/M82	1.03648
4-1-1/M82	0.93592	1
4-1/M82	N/A	N/A
4-3-2/M82	1.02127
4-3/M82	0.97913	1
5-3/M82	1.04561	1
6-2/M82	0.9876	1
6-3/M82	1.01233	1
7-1/M82	N/A	N/A
7-2/M82	0.97783	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	0.84918	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06024	0.715
DC3000/delta hrp 6h	1.00711	1
DC3000/delta hrp 12h	1.30597	1
DC3000/delta hrp 24h	1.10556	0.604

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.20783	0.094
DC3000 delta B/DC3000 delta AB	1.21715	0.183

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.21992	1
Exp 36h	N/A	N/A
Exp 60h	0.94404	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95482	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.00136	1
Var 12h NI row2-row1	1.033	1
Var 36h I row2-row1	1.04986	0.908
Var 36h NI row2-row1	0.9085	0.645
Var 60h I row2-row1	1.05667	1
Var 60h NI row2-row1	0.97101	1
Time course 0hI-0hNI	1.03205	0.867
Time course 12hI-12hNI	0.91571	0.436
Time course 36hI-36hNI	0.85073	0.054
Time course 60hI-60hNI	1.30877	0.06

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)	1.10176	0.931
transgenic ySAMdc/azygous control (breaker)	1.31727	0.248
transgenic ySAMdc/azygous control (red)	1.26763	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99104	0.5

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.17683	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)	1.16163	1
Manapal/WT (red)	0.9607	0.503