Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.8.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.35284	0.359
27DAP/17DAP	1.14729	0.854
39DAP/27DAP	0.94263	0.608
41DAP/39DAP	0.88076	0.536
42DAP/41DAP	0.95972	1
43DAP/42DAP	0.94258	0.829
47DAP/43DAP	1.19024	0.481
52DAP/47DAP	0.88704	0.678
57DAP/52DAP	1.07731	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80998	0.14
17DAP/reference	1.01252	0.904
27DAP/reference	0.97552	0.654
39DAP/reference	1.09598	0.119
41DAP/reference	1.00093	1
42DAP/reference	0.89953	0.078
43DAP/reference	1.03987	0.646
47DAP/reference	0.85431	0.038
52DAP/reference	0.88876	0.139
57DAP/reference	0.85173	0.082

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02253	0.785
27DAP/17DAP	1.05993	0.775
39DAP/27DAP	0.97774	0.775
41DAP/39DAP	0.95677	0.849
42DAP/41DAP	0.99597	0.894
43DAP/42DAP	1.04574	0.162
47DAP/43DAP	1.05271	0.5
52DAP/47DAP	1.01662	0.927
57DAP/52DAP	0.98835	0.756
57DAP/7DAP	0.98438	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04552	0.761
17DAP/reference	0.98589	0.389
27DAP/reference	0.89764	0.082
39DAP/reference	1.1413	0.01
41DAP/reference	1.18395	0.023
42DAP/reference	1.05494	0.308
43DAP/reference	1.04752	0.14
47DAP/reference	0.91936	0.504
52DAP/reference	1.19975	0.046
57DAP/reference	1.10829	0.117

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98233	0.811
17DAP/reference	0.84868	0.072
27DAP/reference	0.89891	0.119
39DAP/reference	0.99211	0.586
41DAP/reference	1.17717	0.188
42DAP/reference	0.98886	0.594
43DAP/reference	0.89251	0.105
47DAP/reference	0.9562	0.292
52DAP/reference	0.89738	0.121
57DAP/reference	0.8511	0.005

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95543	0.335
17DAP/reference	0.98683	0.681
27DAP/reference	0.94628	0.286
39DAP/reference	0.95297	0.199
41DAP/reference	1.02188	0.588
42DAP/reference	0.97746	0.445
43DAP/reference	0.9351	0.294
47DAP/reference	0.91908	0.114
52DAP/reference	0.94508	0.493
57DAP/reference	1.07885	0.255

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06018	0.966
26DAP/20DAP	0.98073	1
34DAP/26DAP	0.95622	0.879
51DAP/34DAP	0.97391	0.816
52DAP/51DAP	0.9901	1
53DAP/52DAP	0.98513	0.909
55DAP/53DAP	0.9783	0.796
57DAP/55DAP	1.11373	0.764
62DAP/57DAP	1.06487	0.833
68DAP/62DAP	0.90496	0.81
68DAP/14DAP	1.26212

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.03589	0.821

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.38541	0.119
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.08083
Mature Eggplant/Ripe Tomato	1.50543	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94552	0.944
1-1-2/M82	1.07734	1
12-2/M82	0.84562
12-4/M82	1.03852	1
1-3/M82	1.0931	0.248
2-1-1/M82	0.98462
2-1/M82	N/A	N/A
2-6/M82	0.96452	1
3-2/M82	1.04606	0.426
4-1-1/M82	0.91701	1
4-1/M82	1.17662	1
4-3-2/M82	1.07	1
4-3/M82	1.06237	1
5-3/M82	1.03916	0.572
6-2/M82	0.96784	1
6-3/M82	0.88849	0.982
7-1/M82	1.0811	0.598
7-2/M82	0.97479	1
9-3-2/M82	0.92774	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.09167
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.94883	1
IL12-4/WTpooled	0.60836	0.71
IL1-4/WTpooled	0.87539
WT/WTpooled	1.15729	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	1.08612	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9601	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.84865	1
DC3000/delta hrp 24h	0.97845	0.897

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.07072	0.27
DC3000 delta B/DC3000 delta AB	1.05091	0.479

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

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

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99455	1
Var 0h	1.05932	1
Var 12h I row2-row1	1.09715	0.272
Var 12h NI row2-row1	0.95528	0.82
Var 36h I row2-row1	1.23934	0.742
Var 36h NI row2-row1	0.98996	0.791
Var 60h I row2-row1	1.09656	0.487
Var 60h NI row2-row1	1.18952	0.904
Time course 0hI-0hNI	1.10026	0.719
Time course 12hI-12hNI	1.04059	0.724
Time course 36hI-36hNI	1.04079	0.355
Time course 60hI-60hNI	1.28287	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)	1.06538	0.287
transgenic ySAMdc/azygous control (breaker)	0.98089	1
transgenic ySAMdc/azygous control (red)	1.01554	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.08482	0.077

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.79215	1
Manapal/WT (break)	0.87445	0.299
Manapal/WT (red)	1.38043	0.413