Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.13.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15747	0.812
27DAP/17DAP	0.95409	0.945
39DAP/27DAP	1.03344	0.938
41DAP/39DAP	1.00252	0.967
42DAP/41DAP	1.06586	0.899
43DAP/42DAP	0.99574	0.937
47DAP/43DAP	0.92274	0.71
52DAP/47DAP	1.08493	0.869
57DAP/52DAP	1.0481	0.946

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92607	0.136
17DAP/reference	0.98802	0.819
27DAP/reference	0.93957	0.208
39DAP/reference	1.06259	0.504
41DAP/reference	0.95319	0.434
42DAP/reference	0.98582	0.348
43DAP/reference	0.96153	0.555
47DAP/reference	0.97829	0.279
52DAP/reference	0.91843	0.33
57DAP/reference	1.03157	0.952

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98759	0.763
27DAP/17DAP	0.95744	0.475
39DAP/27DAP	1.0784	0.541
41DAP/39DAP	1.05773	0.727
42DAP/41DAP	1.02036	0.947
43DAP/42DAP	0.97607	0.751
47DAP/43DAP	1.00249	1
52DAP/47DAP	0.95964	0.778
57DAP/52DAP	1.0326	0.8
57DAP/7DAP	0.90724	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95411	0.246
17DAP/reference	0.95749	0.167
27DAP/reference	0.98431	0.325
39DAP/reference	0.99834	0.745
41DAP/reference	0.97986	0.271
42DAP/reference	0.94843	0.211
43DAP/reference	0.94949	0.139
47DAP/reference	0.94352	0.222
52DAP/reference	1.02682	0.781
57DAP/reference	0.97763	0.353

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94876	0.318
17DAP/reference	0.91066	0.045
27DAP/reference	1.0158	1
39DAP/reference	0.9383	0.126
41DAP/reference	0.9379	0.188
42DAP/reference	1.00368	1
43DAP/reference	0.92865	0.212
47DAP/reference	1.05118	0.413
52DAP/reference	0.92329	0.043
57DAP/reference	0.97845	0.581

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00404	1
17DAP/reference	0.9553	0.342
27DAP/reference	0.99163	0.594
39DAP/reference	0.94857	0.046
41DAP/reference	0.95066	0.264
42DAP/reference	0.97047	0.445
43DAP/reference	0.98173	0.432
47DAP/reference	1.01099	1
52DAP/reference	0.96844	0.623
57DAP/reference	1.04785	0.385

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02255	0.966
26DAP/20DAP	1.08199	0.66
34DAP/26DAP	1.02802	1
51DAP/34DAP	0.94053	0.571
52DAP/51DAP	0.99595	1
53DAP/52DAP	1.0158	0.921
55DAP/53DAP	0.9949	0.917
57DAP/55DAP	0.89303	0.633
62DAP/57DAP	0.98731
68DAP/62DAP	1.12533	0.808
68DAP/14DAP	0.89591	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.05214	0.285

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.05186	1
Mature Green Tomato/Ripe Tomato	1.0141	0.835
Immature Eggplant/Mature Eggplant	1.1493	0.507
Ripe Pepper/Ripe Tomato	1.77003	0.258
Mature Eggplant/Ripe Tomato	1.05533	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96006	0.961
1-1-2/M82	0.98947	1
12-2/M82	0.9025	0.955
12-4/M82	1.00551	1
1-3/M82	1.07942	1
2-1-1/M82	0.82236	0.565
2-1/M82	1.1599	1
2-6/M82	0.9616	1
3-2/M82	1.04142	0.84
4-1-1/M82	1.09661	1
4-1/M82	0.86346	0.735
4-3-2/M82	0.81078	0.698
4-3/M82	0.83797	0.72
5-3/M82	1.02096	1
6-2/M82	1.0105	1
6-3/M82	1.03337	1
7-1/M82	1.04568	1
7-2/M82	0.93181	0.881
9-3-2/M82	0.92747	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.81515	0.247
IL2-6/WTpooled	1.2769	0.395
IL7-5/WTpooled	0.39767	1
IL7-3/WTpooled	0.86843	0.418
IL12-4/WTpooled	1.03848	0.891
IL1-4/WTpooled	1.03512	1
WT/WTpooled	1.03765	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	0.90556	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94284	0.839
DC3000/delta hrp 6h	1.12526	1
DC3000/delta hrp 12h	1.01184	1
DC3000/delta hrp 24h	1.08976	0.453

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.06253	0.145
DC3000 delta B/DC3000 delta AB	1.03663	0.601

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98389	1
Exp 36h	0.97048	0.943
Exp 60h	0.8616	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99197	1
Var 0h	0.55793	0.216
Var 12h I row2-row1	1.21011	0.228
Var 12h NI row2-row1	0.9908	1
Var 36h I row2-row1	0.83467	0.805
Var 36h NI row2-row1	0.97813	0.706
Var 60h I row2-row1	1.11787	0.562
Var 60h NI row2-row1	1.0053	1
Time course 0hI-0hNI	1.05883	0.867
Time course 12hI-12hNI	1.02171	0.842
Time course 36hI-36hNI	0.95159	0.33
Time course 60hI-60hNI	1.08359	0.495

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)	1.35104	0.297
transgenic ySAMdc/azygous control (breaker)	1.02264	1
transgenic ySAMdc/azygous control (red)	1.34806	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98548	0.362

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.71334	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.99941	1
Manapal/WT (break)	0.98384	1
Manapal/WT (red)	1.11412	1