Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.13.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12878	0.812
27DAP/17DAP	1.03406	1
39DAP/27DAP	0.98706	0.782
41DAP/39DAP	1.10904	0.753
42DAP/41DAP	1.11061	0.937
43DAP/42DAP	1.09064	0.993
47DAP/43DAP	0.99048	0.89
52DAP/47DAP	0.97666	0.875
57DAP/52DAP	1.11247	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98575	0.589
17DAP/reference	1.06037	0.089
27DAP/reference	0.97308	0.257
39DAP/reference	0.99599	0.957
41DAP/reference	1.03815	0.265
42DAP/reference	0.9832	0.384
43DAP/reference	0.99741	0.904
47DAP/reference	0.98069	0.322
52DAP/reference	0.85824	0.118
57DAP/reference	0.99696	0.767

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97007	0.56
27DAP/17DAP	1.03822	0.863
39DAP/27DAP	0.98933	0.881
41DAP/39DAP	0.95996	0.804
42DAP/41DAP	0.99136	0.865
43DAP/42DAP	1.04072	0.04
47DAP/43DAP	1.00694	0.957
52DAP/47DAP	0.98052	0.9
57DAP/52DAP	1.04651	0.718
57DAP/7DAP	0.95615	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86653	0.054
17DAP/reference	0.8645	0.044
27DAP/reference	0.83379	0.01
39DAP/reference	0.83964	0.013
41DAP/reference	0.81048	0.02
42DAP/reference	0.86566	0.095
43DAP/reference	0.84682	0.022
47DAP/reference	0.8586	0.222
52DAP/reference	0.78203	0.072
57DAP/reference	0.75346	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96386	0.532
17DAP/reference	0.94823	0.095
27DAP/reference	0.88484	0.079
39DAP/reference	0.89805	0.132
41DAP/reference	0.92554	0.242
42DAP/reference	1.0056	1
43DAP/reference	1.10344	0.327
47DAP/reference	1.05923	0.148
52DAP/reference	0.95486	0.121
57DAP/reference	1.01423	0.887

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87586	0.046
17DAP/reference	0.95206	0.47
27DAP/reference	0.86588	0.056
39DAP/reference	0.85647	0.04
41DAP/reference	0.85658	0.019
42DAP/reference	0.87086	0.02
43DAP/reference	0.87382	0.023
47DAP/reference	1.03175	0.966
52DAP/reference	1.01487	0.908
57DAP/reference	0.81382	0.022

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98254	1
26DAP/20DAP	0.99473	1
34DAP/26DAP	1.00625	1
51DAP/34DAP	1.04896	0.55
52DAP/51DAP	1.02746	0.708
53DAP/52DAP	1.00523	0.961
55DAP/53DAP	0.97642	0.632
57DAP/55DAP	1.22422	0.865
62DAP/57DAP	0.96469	0.994
68DAP/62DAP	1.18181	0.664
68DAP/14DAP	1.09047	0.615

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.99719	0.814

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.43873	0.084
Mature Green Tomato/Ripe Tomato	0.87545
Immature Eggplant/Mature Eggplant	1.48755	0.061
Ripe Pepper/Ripe Tomato	0.9914	1
Mature Eggplant/Ripe Tomato	0.50323	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97189	0.944
1-1-2/M82	1.01874	1
12-2/M82	0.89438	0.955
12-4/M82	0.94905	0.619
1-3/M82	0.95843	0.378
2-1-1/M82	0.91525	0.683
2-1/M82	1.03553	1
2-6/M82	0.97611	1
3-2/M82	0.95402	1
4-1-1/M82	0.9576	1
4-1/M82	0.88497	1
4-3-2/M82	0.87862	0.487
4-3/M82	0.98625	1
5-3/M82	0.96663	1
6-2/M82	0.99311	1
6-3/M82	1.02417	1
7-1/M82	1.03849	1
7-2/M82	0.96736	0.881
9-3-2/M82	0.92749	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.86569	0.321
IL2-6/WTpooled	0.9797	1
IL7-5/WTpooled	1.23152	0.75
IL7-3/WTpooled	0.98115	1
IL12-4/WTpooled	0.81334	0.543
IL1-4/WTpooled	1.0349	1
WT/WTpooled	1.0184	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	1.42153	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10344	0.875
DC3000/delta hrp 6h	1.17314	1
DC3000/delta hrp 12h	0.98565	1
DC3000/delta hrp 24h	1.05248	0.356

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.13797
DC3000 delta B/DC3000 delta AB	1.16199	0.234

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.25945	1
Exp 36h	1.92951	0.489
Exp 60h	2.51678	0.215

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99838	1
Var 0h	0.42437	0.332
Var 12h I row2-row1	1.12752	0.544
Var 12h NI row2-row1	0.98263	0.906
Var 36h I row2-row1	1.06219	1
Var 36h NI row2-row1	0.92326	0.402
Var 60h I row2-row1	0.95298	0.306
Var 60h NI row2-row1	1.07726	0.904
Time course 0hI-0hNI	1.019	1
Time course 12hI-12hNI	1.0449	0.77
Time course 36hI-36hNI	1.1361	0.044
Time course 60hI-60hNI	1.76338	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)	1.02995	0.863
transgenic ySAMdc/azygous control (breaker)	0.69645	0.15
transgenic ySAMdc/azygous control (red)	1.28437	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9899	0.552

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.77893	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.78328	1
Manapal/WT (break)	0.70677	0.333
Manapal/WT (red)	0.383	0.181