Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.8.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83541	0.211
27DAP/17DAP	0.74685	0.381
39DAP/27DAP	2.62002	0.649
41DAP/39DAP	1.21626	0.553
42DAP/41DAP	0.88653	1
43DAP/42DAP	0.84027	0.589
47DAP/43DAP	0.99454	0.904
52DAP/47DAP	1.0761	0.902
57DAP/52DAP	0.96102	0.923

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00564	1
17DAP/reference	1.03206	0.33
27DAP/reference	1.01735	0.806
39DAP/reference	0.99974	1
41DAP/reference	1.10204	0.058
42DAP/reference	0.92396	0.004
43DAP/reference	1.00072	1
47DAP/reference	0.95056	0.148
52DAP/reference	0.96942	0.405
57DAP/reference	0.99117	0.526

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.24586	0.372
27DAP/17DAP	0.91678	0.748
39DAP/27DAP	0.76535	0.072
41DAP/39DAP	1.06762	1
42DAP/41DAP	1.41512	0.006
43DAP/42DAP	0.84351	0.137
47DAP/43DAP	0.81756	0.214
52DAP/47DAP	2.58396	0.052
57DAP/52DAP	2.49952	0.035
57DAP/7DAP	2.27071	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12933	0.193
17DAP/reference	1.30371	0.022
27DAP/reference	1.22442	0.041
39DAP/reference	1.73243	0.012
41DAP/reference	1.41722	0.026
42DAP/reference	1.29349	0.308
43DAP/reference	1.58529	0.007
47DAP/reference	1.02156	1
52DAP/reference	1.35105	0.121
57DAP/reference	1.24111	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00421	1
17DAP/reference	0.98078	0.523
27DAP/reference	0.97231	0.366
39DAP/reference	0.96934	0.339
41DAP/reference	0.96758	0.373
42DAP/reference	0.9194	0.121
43DAP/reference	1.0126	0.977
47DAP/reference	0.91214	0.054
52DAP/reference	1.07972	0.05
57DAP/reference	1.02499	0.887

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29416	0.162
17DAP/reference	0.99571	0.839
27DAP/reference	1.23353	0.078
39DAP/reference	1.17492	0.163
41DAP/reference	1.07596	0.621
42DAP/reference	1.1131	0.5
43DAP/reference	1.16072	0.432
47DAP/reference	0.88755	0.174
52DAP/reference	1.28786	0.237
57DAP/reference	0.80036	0.102

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03245	0.966
26DAP/20DAP	3.76405	0.173
34DAP/26DAP	5.02009	1
51DAP/34DAP	1.77527	0.883
52DAP/51DAP	6.02134	0.034
53DAP/52DAP	0.69868
55DAP/53DAP	1.34359	0.039
57DAP/55DAP	0.37158	0.025
62DAP/57DAP	2.2173	0.115
68DAP/62DAP	0.89169	0.722
68DAP/14DAP	1.16641	0.594

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.13897	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.94209	0.658
Mature Green Tomato/Ripe Tomato	1.48857	0.134
Immature Eggplant/Mature Eggplant	0.98183	0.912
Ripe Pepper/Ripe Tomato	2.55083	0.239
Mature Eggplant/Ripe Tomato	1.68346	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.07809	0.877
1-1-2/M82	1.17287	1
12-2/M82	1.04424	1
12-4/M82	0.95845	1
1-3/M82	0.96975	1
2-1-1/M82	1.13236	0.457
2-1/M82	0.98067	0.345
2-6/M82	1.21692	0.594
3-2/M82	0.84468
4-1-1/M82	0.94906	1
4-1/M82	0.98343	1
4-3-2/M82	1.02709	1
4-3/M82	0.81555	0.611
5-3/M82	0.99472	1
6-2/M82	1.0856	0.235
6-3/M82	1.06876	1
7-1/M82	0.9865	1
7-2/M82	0.95366	0.881
9-3-2/M82	1.04211	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	0.89961	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96213	1
DC3000/delta hrp 6h	0.75376	0.834
DC3000/delta hrp 12h	1.01113	1
DC3000/delta hrp 24h	1.08328	0.595

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.07699	0.441
DC3000 delta B/DC3000 delta AB	1.27144	0.201

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.8947	1
Exp 36h	1.16672	1
Exp 60h	1.03499	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98548	1
Var 0h	0.50969	1
Var 12h I row2-row1	0.70076	0.418
Var 12h NI row2-row1	1.1031	1
Var 36h I row2-row1	1.20722	1
Var 36h NI row2-row1	1.63886	0.276
Var 60h I row2-row1	0.71581	0.285
Var 60h NI row2-row1	1.00156	1
Time course 0hI-0hNI	0.85975	0.317
Time course 12hI-12hNI	1.06143	1
Time course 36hI-36hNI	0.86444	0.215
Time course 60hI-60hNI	0.59114	0.006

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)	0.94769	0.485
transgenic ySAMdc/azygous control (breaker)	0.97901	1
transgenic ySAMdc/azygous control (red)	0.90346	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98118	0.459

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.99382	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.89051	0.172
Manapal/WT (break)	1.04036	1
Manapal/WT (red)	0.99691	1