Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.2.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.5269	0.646
27DAP/17DAP	1.61876	0.319
39DAP/27DAP	2.11014	0.212
41DAP/39DAP	1.10451	0.887
42DAP/41DAP	2.20557	0.032
43DAP/42DAP	0.80572	0.554
47DAP/43DAP	0.53565	0.052
52DAP/47DAP	0.81746	0.54
57DAP/52DAP	1.05083	0.985

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81361	0.111
17DAP/reference	0.7811	0.008
27DAP/reference	0.87997	0.137
39DAP/reference	0.88072	0.085
41DAP/reference	0.84574	0.016
42DAP/reference	1.11539	0.108
43DAP/reference	0.89047	0.071
47DAP/reference	0.95604	0.258
52DAP/reference	1.01342	0.749
57DAP/reference	1.06951	0.355

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20412	0.241
27DAP/17DAP	1.50218	0.053
39DAP/27DAP	2.06804	0.063
41DAP/39DAP	2.0753	0.008
42DAP/41DAP	0.71026	0.009
43DAP/42DAP	0.55468	0.022
47DAP/43DAP	1.14766	0.147
52DAP/47DAP	0.95605	0.77
57DAP/52DAP	0.59291	0.253
57DAP/7DAP	1.31551	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07758	1
17DAP/reference	0.95744	0.518
27DAP/reference	1.38132	0.107
39DAP/reference	1.10356	0.745
41DAP/reference	0.93448	0.298
42DAP/reference	1.37093	0.233
43DAP/reference	1.08085	0.923
47DAP/reference	1.43255	0.279
52DAP/reference	1.5616	0.019
57DAP/reference	2.38335	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74863	0.019
17DAP/reference	0.80737	0.08
27DAP/reference	0.96225	0.407
39DAP/reference	1.09872	1
41DAP/reference	0.99203	0.531
42DAP/reference	1.04654	0.843
43DAP/reference	1.60412	0.146
47DAP/reference	1.25125	0.042
52DAP/reference	1.20776	0.017
57DAP/reference	1.94492	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.70108	0.068
17DAP/reference	1.00844	0.778
27DAP/reference	1.27896	0.131
39DAP/reference	1.08202	0.596
41DAP/reference	1.06943	0.637
42DAP/reference	0.99876	1
43DAP/reference	0.83669	0.071
47DAP/reference	0.80596	0.008
52DAP/reference	0.72507	0.066
57DAP/reference	1.10578	0.771

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07179	1
26DAP/20DAP	0.71666	1
34DAP/26DAP	0.99139	1
51DAP/34DAP	2.14535	0.075
52DAP/51DAP	1.64711	0.238
53DAP/52DAP	1.32043	0.565
55DAP/53DAP	1.15867	0.584
57DAP/55DAP	1.03069	0.407
62DAP/57DAP	4.71643
68DAP/62DAP	1.28653	0.813
68DAP/14DAP	1.17656	0.346

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	6.94578	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.49988	0.145
Mature Green Tomato/Ripe Tomato	2.46965	0.119
Immature Eggplant/Mature Eggplant	1.6733	0.052
Ripe Pepper/Ripe Tomato	0.4707	0.293
Mature Eggplant/Ripe Tomato	0.54053	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.93905	0.944
1-1-2/M82	1.22986	1
12-2/M82	0.91293	0.955
12-4/M82	1.15126
1-3/M82	6.31865	1
2-1-1/M82	0.74426	0.565
2-1/M82	1.21173	0.345
2-6/M82	0.76751	0.501
3-2/M82	1.10314
4-1-1/M82	0.76354	1
4-1/M82	1.4848
4-3-2/M82	1.2096
4-3/M82	0.82374	0.72
5-3/M82	1.24308	1
6-2/M82	1.92406	1
6-3/M82	1.22592	1
7-1/M82	N/A	N/A
7-2/M82	0.80765	0.578
9-3-2/M82	0.91182

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.17798	0.365
IL2-6/WTpooled	1.71901	0.659
IL7-5/WTpooled	1.46151	0.792
IL7-3/WTpooled	0.64858	0.418
IL12-4/WTpooled	0.8766	0.71
IL1-4/WTpooled	1.3464	0.426
WT/WTpooled	0.89111	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	1.41749	0.177

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01551	1
DC3000/delta hrp 6h	0.93454	0.95
DC3000/delta hrp 12h	0.97226	1
DC3000/delta hrp 24h	1.00481	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.55085
DC3000 delta B/DC3000 delta AB	3.3704	0.046

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.50808	0.254
Exp 36h	1.57117	0.693
Exp 60h	2.65963	0.227

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

hybridization	ratio	FDR (corrected p value)
self-self	0.93393	1
Var 0h	1.99598	0.259
Var 12h I row2-row1	0.90458	0.705
Var 12h NI row2-row1	2.22622	0.235
Var 36h I row2-row1	1.63367	0.41
Var 36h NI row2-row1	0.41807	0.469
Var 60h I row2-row1	0.86929	0.952
Var 60h NI row2-row1	0.87959	0.756
Time course 0hI-0hNI	1.55833	0.413
Time course 12hI-12hNI	0.81881	0.436
Time course 36hI-36hNI	3.51076	0.004
Time course 60hI-60hNI	19.6987	0.008

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)	0.75007	0.246
transgenic ySAMdc/azygous control (breaker)	8.31275	0.166
transgenic ySAMdc/azygous control (red)	1.17837	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97835	0.286

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.55364	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.53271	0.14
Manapal/WT (break)	6.94382	0.381
Manapal/WT (red)	0.92655	0.607