Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.9.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82747	0.265
27DAP/17DAP	0.8788	0.713
39DAP/27DAP	1.04731	0.82
41DAP/39DAP	0.93621	0.645
42DAP/41DAP	1.16892	0.856
43DAP/42DAP	1.39667	0.929
47DAP/43DAP	0.94274	0.815
52DAP/47DAP	1.35079	0.987
57DAP/52DAP	1.02679	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87012	0.224
17DAP/reference	0.96874	0.597
27DAP/reference	1.0527	0.771
39DAP/reference	1.08026	0.722
41DAP/reference	0.91271	0.341
42DAP/reference	0.80314	0.007
43DAP/reference	0.99324	0.84
47DAP/reference	0.87652	0.025
52DAP/reference	0.88116	0.046
57DAP/reference	0.84089	0.017

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98767	0.801
27DAP/17DAP	1.0437	0.995
39DAP/27DAP	0.94179	0.703
41DAP/39DAP	0.99264	0.997
42DAP/41DAP	0.97448	0.776
43DAP/42DAP	1.00665	1
47DAP/43DAP	0.82768	0.247
52DAP/47DAP	1.19652	0.58
57DAP/52DAP	1.18012	0.699
57DAP/7DAP	1.30237	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.36635	0.083
17DAP/reference	1.66379	0.009
27DAP/reference	1.28859	0.073
39DAP/reference	1.0237	1
41DAP/reference	1.25375	0.223
42DAP/reference	1.41945	0.016
43DAP/reference	1.5505	0.063
47DAP/reference	1.25194	0.187
52DAP/reference	1.15366	0.352
57DAP/reference	1.1817	0.214

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23704	0.249
17DAP/reference	1.01831	0.805
27DAP/reference	1.31115	0.562
39DAP/reference	1.01067	0.621
41DAP/reference	0.82664	0.121
42DAP/reference	0.88826	0.169
43DAP/reference	1.04184	0.875
47DAP/reference	0.79013	0.045
52DAP/reference	0.85967	0.101
57DAP/reference	0.89541	0.18

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26473	0.088
17DAP/reference	1.00997	0.839
27DAP/reference	1.48571	0.021
39DAP/reference	1.46859	0.01
41DAP/reference	1.27112	0.104
42DAP/reference	1.17953	0.589
43DAP/reference	1.15559	0.935
47DAP/reference	0.85045	0.097
52DAP/reference	2.21309	0.194
57DAP/reference	0.85524	0.102

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02472	1
26DAP/20DAP	1.31394	0.587
34DAP/26DAP	0.84106	0.565
51DAP/34DAP	0.95162	0.747
52DAP/51DAP	1.054	1
53DAP/52DAP	0.89692	0.604
55DAP/53DAP	1.13524	0.855
57DAP/55DAP	0.82165	0.36
62DAP/57DAP	1.21968	0.678
68DAP/62DAP	1.33611	0.151
68DAP/14DAP	1.08316	0.889

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.50533	0.131

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	821.407
Immature Eggplant/Mature Eggplant	3.6474	0.05
Ripe Pepper/Ripe Tomato	0.24635	0.224
Mature Eggplant/Ripe Tomato	0.94058	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.85428
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.91274
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
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	1.22445	0.531
IL7-5/WTpooled	1.1627
IL7-3/WTpooled	0.92596	1
IL12-4/WTpooled	0.98182	1
IL1-4/WTpooled	1.06503	1
WT/WTpooled	1.05791	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	1.02204	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10442	0.538
DC3000/delta hrp 6h	1.00866	0.95
DC3000/delta hrp 12h	0.97792	1
DC3000/delta hrp 24h	0.93676	0.642

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.79348	1
Exp 36h	1.80454	1
Exp 60h	1.24878	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.08528	1
Var 0h	0.51071	0.933
Var 12h I row2-row1	1.35722	0.58
Var 12h NI row2-row1	1.14183	0.649
Var 36h I row2-row1	1.17589	1
Var 36h NI row2-row1	1.1197	1
Var 60h I row2-row1	0.84501
Var 60h NI row2-row1	1.60958	0.904
Time course 0hI-0hNI	0.96724	0.873
Time course 12hI-12hNI	1.14556	0.162
Time course 36hI-36hNI	0.73896	0.045
Time course 60hI-60hNI	0.74803	0.026

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)	1.03966	0.571
transgenic ySAMdc/azygous control (breaker)	0.8034	0.142
transgenic ySAMdc/azygous control (red)	1.00717	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.08364	0.083

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.0206	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.80516	1
Manapal/WT (break)	0.74197	0.299
Manapal/WT (red)	0.83393	0.242