Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.2.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10033	0.878
27DAP/17DAP	0.83476	0.561
39DAP/27DAP	1.28821	0.476
41DAP/39DAP	0.67086	0.092
42DAP/41DAP	1.21777	0.974
43DAP/42DAP	1.11026	0.974
47DAP/43DAP	0.90132	0.663
52DAP/47DAP	0.93226	0.779
57DAP/52DAP	1.17146	0.737

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10206	0.29
17DAP/reference	0.92281	0.342
27DAP/reference	0.94876	0.406
39DAP/reference	0.94159	0.467
41DAP/reference	0.90388	0.201
42DAP/reference	1.06538	0.869
43DAP/reference	1.12371	0.142
47DAP/reference	1.10322	0.042
52DAP/reference	0.83655	0.077
57DAP/reference	1.01002	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18982	0.179
27DAP/17DAP	1.08837	0.905
39DAP/27DAP	0.91437	0.462
41DAP/39DAP	1.37429	0.69
42DAP/41DAP	1.04983	0.893
43DAP/42DAP	0.75492	0.027
47DAP/43DAP	0.97379	0.877
52DAP/47DAP	0.90258	0.46
57DAP/52DAP	1.00636	0.921
57DAP/7DAP	0.91417	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.70651	0.024
17DAP/reference	1.54586	0.008
27DAP/reference	1.56995	0.007
39DAP/reference	1.46784	0.008
41DAP/reference	1.35566	0.018
42DAP/reference	1.29474	0.01
43DAP/reference	1.04784	0.83
47DAP/reference	1.43318	0.018
52DAP/reference	1.67815	0.007
57DAP/reference	1.45654	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0449	0.894
17DAP/reference	1.19797	0.278
27DAP/reference	1.50403	0.073
39DAP/reference	1.47926	0.013
41DAP/reference	1.33378	0.012
42DAP/reference	1.24932	0.04
43DAP/reference	0.90222	0.307
47DAP/reference	1.55003	0.008
52DAP/reference	0.96102	0.38
57DAP/reference	1.09947	0.887

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.54155	0.016
17DAP/reference	1.13835	0.333
27DAP/reference	1.11859	0.125
39DAP/reference	1.3922	0.011
41DAP/reference	1.14064	0.471
42DAP/reference	1.2646	0.134
43DAP/reference	1.57142	0.023
47DAP/reference	1.12058	0.461
52DAP/reference	1.76727	0.035
57DAP/reference	1.62865	0.019

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04558	0.966
26DAP/20DAP	1.74901	0.265
34DAP/26DAP	0.80155	0.112
51DAP/34DAP	0.91995	0.618
52DAP/51DAP	0.81044	1
53DAP/52DAP	0.96259	0.848
55DAP/53DAP	0.50374	0.02
57DAP/55DAP	1.17246	0.805
62DAP/57DAP	0.69652	0.088
68DAP/62DAP	1.17435	0.626
68DAP/14DAP	1.83797	0.161

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.6658	0.026

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.10603	0.075
Mature Green Tomato/Ripe Tomato	1.32815	0.106
Immature Eggplant/Mature Eggplant	1.42088	0.05
Ripe Pepper/Ripe Tomato	1.10133	1
Mature Eggplant/Ripe Tomato	0.95094	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91152	0.907
1-1-2/M82	1.22354	1
12-2/M82	0.91912	0.955
12-4/M82	1.10869	1
1-3/M82	2.39263	0.277
2-1-1/M82	0.86977	0.784
2-1/M82	0.9117	0.74
2-6/M82	0.75704	0.501
3-2/M82	1.20561	0.717
4-1-1/M82	1.09112	0.968
4-1/M82	0.80606
4-3-2/M82	1.34439	0.284
4-3/M82	1.19535	1
5-3/M82	1.33588	0.496
6-2/M82	1.10424	1
6-3/M82	1.32477	1
7-1/M82	0.8968	0.803
7-2/M82	1.21771	0.324
9-3-2/M82	1.28261	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.3002
IL2-6/WTpooled	1.05561	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.86778	0.418
IL12-4/WTpooled	0.8462	0.543
IL1-4/WTpooled	0.92462	1
WT/WTpooled	0.93794	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	1.06966	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09845	0.75
DC3000/delta hrp 6h	1.12414	1
DC3000/delta hrp 12h	0.96805	1
DC3000/delta hrp 24h	1.26978	0.069

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.02754
DC3000 delta B/DC3000 delta AB	1.23742	0.261

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.8938	1
Exp 36h	1.34614	0.693
Exp 60h	1.32572	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00144	1
Var 0h	0.88077	0.594
Var 12h I row2-row1	1.00378	1
Var 12h NI row2-row1	1.32525	0.649
Var 36h I row2-row1	1.28732	0.298
Var 36h NI row2-row1	0.77792	0.478
Var 60h I row2-row1	0.7454	0.582
Var 60h NI row2-row1	0.76432	0.38
Time course 0hI-0hNI	0.82648	0.095
Time course 12hI-12hNI	1.07199	0.572
Time course 36hI-36hNI	1.54386	0.035
Time course 60hI-60hNI	1.64409	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)	0.93193	0.485
transgenic ySAMdc/azygous control (breaker)	1.33521	0.178
transgenic ySAMdc/azygous control (red)	1.25937	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.12892	0.317

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.92418	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.83621	0.172
Manapal/WT (break)	1.11816	1
Manapal/WT (red)	1.11388	1