Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.20.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86965	0.464
27DAP/17DAP	1.37218	0.728
39DAP/27DAP	0.80334	0.522
41DAP/39DAP	1.53454	0.483
42DAP/41DAP	1.11802	1
43DAP/42DAP	1.26749	0.974
47DAP/43DAP	1.25447	0.809
52DAP/47DAP	1.04851	0.984
57DAP/52DAP	0.96829	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91615	0.432
17DAP/reference	1.29822	0.064
27DAP/reference	1.04268	0.759
39DAP/reference	0.96686	0.874
41DAP/reference	1.3671	0.421
42DAP/reference	0.70893	0.007
43DAP/reference	1.44269	0.617
47DAP/reference	0.77719	0.098
52DAP/reference	1.03789	1
57DAP/reference	0.657	0.009

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	N/A	N/A
27DAP/17DAP	1.24104
39DAP/27DAP	1.91092	0.171
41DAP/39DAP	1.01759	1
42DAP/41DAP	1.26909	1
43DAP/42DAP	1.00971	1
47DAP/43DAP	1.15027	0.901
52DAP/47DAP	1.21165	0.494
57DAP/52DAP	1.08666	0.856
57DAP/7DAP	1.13038	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93477	0.063
17DAP/reference	0.74467	0.011
27DAP/reference	0.70501	0.01
39DAP/reference	0.86788	0.073
41DAP/reference	0.81227	0.05
42DAP/reference	0.79561	0.02
43DAP/reference	0.80514	0.013
47DAP/reference	0.85576	0.168
52DAP/reference	0.82251	0.017
57DAP/reference	0.88893	0.02

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00233	0.869
17DAP/reference	0.94727	0.434
27DAP/reference	0.85842	0.203
39DAP/reference	0.80898	0.097
41DAP/reference	0.85173	0.164
42DAP/reference	0.81964	0.189
43DAP/reference	0.99752	0.748
47DAP/reference	1.09143	0.731
52DAP/reference	1.01532	1
57DAP/reference	0.92545	0.259

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81355	0.027
17DAP/reference	0.93707	0.407
27DAP/reference	0.77834	0.021
39DAP/reference	0.83383	0.043
41DAP/reference	0.80577	0.031
42DAP/reference	0.86222	0.172
43DAP/reference	0.83295	0.15
47DAP/reference	0.94269	0.278
52DAP/reference	0.90676	0.472
57DAP/reference	0.66898	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08613	0.966
26DAP/20DAP	1.29912	0.534
34DAP/26DAP	1.10262	0.819
51DAP/34DAP	0.90492	0.419
52DAP/51DAP	0.86629	1
53DAP/52DAP	1.24582	0.921
55DAP/53DAP	1.36055	0.46
57DAP/55DAP	1.16502	0.841
62DAP/57DAP	0.97827	0.994
68DAP/62DAP	0.81848	0.505
68DAP/14DAP	0.75389	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.16098	0.607

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.65921
Mature Green Tomato/Ripe Tomato	0.58745	0.029
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	2.6896
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.95082
12-2/M82	N/A	N/A
12-4/M82	0.49688
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	0.95058	1
4-1-1/M82	N/A	N/A
4-1/M82	0.70327
4-3-2/M82	0.63372	0.487
4-3/M82	N/A	N/A
5-3/M82	0.98131	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.6636
7-2/M82	N/A	N/A
9-3-2/M82	0.73616	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.28875	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.08384	1
IL12-4/WTpooled	0.79766	0.71
IL1-4/WTpooled	0.91622	0.834
WT/WTpooled	0.91134	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	0.41303

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96745	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.01986	1
DC3000/delta hrp 24h	0.90126

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	N/A	N/A
Exp 36h	0.83634	0.879
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	0.92067
Var 0h	N/A	N/A
Var 12h I row2-row1	1.058	0.202
Var 12h NI row2-row1	0.93909	0.906
Var 36h I row2-row1	1.10081
Var 36h NI row2-row1	1.89791	1
Var 60h I row2-row1	0.92281	0.582
Var 60h NI row2-row1	0.55327	0.408
Time course 0hI-0hNI	0.84382	0.247
Time course 12hI-12hNI	1.04182	0.82
Time course 36hI-36hNI	1.11236	0.881
Time course 60hI-60hNI	1.21451	0.187

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)	1.06167	0.384
transgenic ySAMdc/azygous control (breaker)	1.16981	0.178
transgenic ySAMdc/azygous control (red)	1.0146	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97293	0.471

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.03816	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)	0.8848	1
Manapal/WT (red)	1.20258	0.413