Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.14.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.63549	0.028
27DAP/17DAP	0.85251	0.626
39DAP/27DAP	1.27274	0.256
41DAP/39DAP	0.82141	0.322
42DAP/41DAP	0.88923	1
43DAP/42DAP	1.02911	1
47DAP/43DAP	0.80287	0.386
52DAP/47DAP	1.22479	0.538
57DAP/52DAP	1.05294	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06506	0.366
17DAP/reference	0.98215	0.737
27DAP/reference	0.91508	0.106
39DAP/reference	0.94049	0.5
41DAP/reference	0.91436	0.049
42DAP/reference	0.93261	0.02
43DAP/reference	0.93047	0.08
47DAP/reference	0.88901	0.009
52DAP/reference	1.00271	0.791
57DAP/reference	0.88002	0.068

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02949	0.675
27DAP/17DAP	0.99099	0.919
39DAP/27DAP	0.94416	0.496
41DAP/39DAP	0.96974	0.934
42DAP/41DAP	1.01888	0.984
43DAP/42DAP	0.98182	0.751
47DAP/43DAP	0.99337	0.977
52DAP/47DAP	0.9647	0.778
57DAP/52DAP	1.04889	0.703
57DAP/7DAP	1.02227	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.6689	0.058
17DAP/reference	1.3553	0.045
27DAP/reference	1.11307	0.049
39DAP/reference	1.05113	0.059
41DAP/reference	1.15501	0.02
42DAP/reference	1.10514	0.174
43DAP/reference	1.10543	0.063
47DAP/reference	1.05146	0.868
52DAP/reference	1.18068	0.076
57DAP/reference	1.12071	0.061

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07251	0.284
17DAP/reference	1.22089	0.009
27DAP/reference	1.14383	0.156
39DAP/reference	0.88174	0.221
41DAP/reference	1.06432	0.525
42DAP/reference	1.08358	0.445
43DAP/reference	0.97884	0.592
47DAP/reference	0.91543	0.164
52DAP/reference	0.67503	0.007
57DAP/reference	0.77237	0.017

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26556	0.017
17DAP/reference	1.05604	0.854
27DAP/reference	1.04494	0.425
39DAP/reference	1.07397	0.125
41DAP/reference	0.96046	0.371
42DAP/reference	0.94509	0.134
43DAP/reference	0.98075	0.614
47DAP/reference	0.81551	0.005
52DAP/reference	0.87088	0.145
57DAP/reference	0.8974	0.09

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94197	0.773
26DAP/20DAP	1.11991	0.555
34DAP/26DAP	0.98375	0.98
51DAP/34DAP	0.9387	0.563
52DAP/51DAP	1.05366	0.431
53DAP/52DAP	0.9673	0.811
55DAP/53DAP	0.94562	0.604
57DAP/55DAP	0.98176	0.867
62DAP/57DAP	1.01177	1
68DAP/62DAP	0.93081	0.7
68DAP/14DAP	1.08861	0.469

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.24191	0.025

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.97835	0.765
Mature Green Tomato/Ripe Tomato	1.73912	0.02
Immature Eggplant/Mature Eggplant	0.92961	0.366
Ripe Pepper/Ripe Tomato	1.17455	1
Mature Eggplant/Ripe Tomato	1.78742	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03607	1
1-1-2/M82	1.01459	1
12-2/M82	0.94217	0.955
12-4/M82	0.98466	1
1-3/M82	1.00828
2-1-1/M82	0.97583	0.465
2-1/M82	1.17549	1
2-6/M82	0.98479	1
3-2/M82	1.05355	0.549
4-1-1/M82	1.13819	1
4-1/M82	0.99014	1
4-3-2/M82	0.87809
4-3/M82	1.05552	1
5-3/M82	1.03176	1
6-2/M82	1.03255	1
6-3/M82	0.99728	1
7-1/M82	0.98198	1
7-2/M82	1.08834	0.282
9-3-2/M82	1.10606	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.01109	1
IL2-6/WTpooled	0.90352	1
IL7-5/WTpooled	1.63385	0.495
IL7-3/WTpooled	1.10155	1
IL12-4/WTpooled	1.07376	0.839
IL1-4/WTpooled	0.95775	0.834
WT/WTpooled	0.99792	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	1.12227	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0082	1
DC3000/delta hrp 6h	1.0007	1
DC3000/delta hrp 12h	0.96652	1
DC3000/delta hrp 24h	0.99105	1

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	1.27972	0.146

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.12256	1
Exp 36h	1.09896	1
Exp 60h	1.2275	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98149	1
Var 0h	1.3671	0.339
Var 12h I row2-row1	1.10169	0.654
Var 12h NI row2-row1	0.96508	0.906
Var 36h I row2-row1	0.93045	1
Var 36h NI row2-row1	0.93168	0.743
Var 60h I row2-row1	1.18156	0.543
Var 60h NI row2-row1	1.03059	1
Time course 0hI-0hNI	1.11707	0.537
Time course 12hI-12hNI	1.05724	0.621
Time course 36hI-36hNI	1.2542	0.039
Time course 60hI-60hNI	1.61396	0.359

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)	1.14527	0.654
transgenic ySAMdc/azygous control (breaker)	1.13974	1
transgenic ySAMdc/azygous control (red)	1.23234	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03088	0.723

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.71316	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.2872	0.105
Manapal/WT (break)	1.02831	1
Manapal/WT (red)	0.78623	0.188