Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.2.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.16817	0.061
27DAP/17DAP	0.74599	0.293
39DAP/27DAP	1.16031	0.752
41DAP/39DAP	1.02312	0.938
42DAP/41DAP	0.96383	1
43DAP/42DAP	0.60528	0.346
47DAP/43DAP	1.86617	0.187
52DAP/47DAP	1.01062	0.859
57DAP/52DAP	0.88884	0.85

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88822	0.217
17DAP/reference	1.37915	0.306
27DAP/reference	0.85146	0.052
39DAP/reference	0.94377	0.412
41DAP/reference	1.1168	0.187
42DAP/reference	0.79366	0.001
43DAP/reference	0.87017	0.058
47DAP/reference	1.33281	0.011
52DAP/reference	1.70372	0.05
57DAP/reference	1.36703	0.027

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01638	1
27DAP/17DAP	1.06048	0.885
39DAP/27DAP	0.7378	0.127
41DAP/39DAP	1.04181	0.896
42DAP/41DAP	1.1695	0.139
43DAP/42DAP	0.95375	0.503
47DAP/43DAP	0.86547	0.134
52DAP/47DAP	0.97307	0.898
57DAP/52DAP	0.79939	0.264
57DAP/7DAP	0.91858	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98913	0.682
17DAP/reference	0.68211	0.011
27DAP/reference	0.67095	0.01
39DAP/reference	1.17223	0.09
41DAP/reference	0.79852	0.039
42DAP/reference	0.87476	0.13
43DAP/reference	0.69162	0.011
47DAP/reference	1.01379	1
52DAP/reference	0.94264	0.363
57DAP/reference	0.78972	0.013

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88193	0.067
17DAP/reference	0.95515	0.389
27DAP/reference	0.79647	0.021
39DAP/reference	1.46802	0.012
41DAP/reference	0.7775	0.026
42DAP/reference	0.78551	0.021
43DAP/reference	0.85604	0.032
47DAP/reference	0.93795	0.188
52DAP/reference	0.80509	0.021
57DAP/reference	1.00646	0.916

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86627	0.065
17DAP/reference	0.93631	0.452
27DAP/reference	0.59817	0.024
39DAP/reference	0.92027	0.163
41DAP/reference	0.94433	0.331
42DAP/reference	0.75521	0.016
43DAP/reference	0.66354	0.017
47DAP/reference	0.65135	0.004
52DAP/reference	0.57793	0.049
57DAP/reference	0.8111	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02976	1
26DAP/20DAP	0.84962	0.317
34DAP/26DAP	1.01843	1
51DAP/34DAP	0.78215	0.098
52DAP/51DAP	0.81702	1
53DAP/52DAP	1.15453	0.261
55DAP/53DAP	1.23025	0.319
57DAP/55DAP	1.14354	0.61
62DAP/57DAP	1.60458
68DAP/62DAP	0.80778	0.429
68DAP/14DAP	0.70199	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.69603	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.24382	0.068
Mature Green Tomato/Ripe Tomato	1.68893	0.119
Immature Eggplant/Mature Eggplant	0.97321	0.72
Ripe Pepper/Ripe Tomato	2.36175	0.258
Mature Eggplant/Ripe Tomato	0.52944	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00091	1
1-1-2/M82	1.15519	1
12-2/M82	1.26475	1
12-4/M82	0.89718	1
1-3/M82	1.30236	0.479
2-1-1/M82	1.03529	1
2-1/M82	0.98776	1
2-6/M82	0.98017	1
3-2/M82	1.323
4-1-1/M82	1.03112	1
4-1/M82	1.15087
4-3-2/M82	1.07963
4-3/M82	0.63765	0.466
5-3/M82	0.98745	1
6-2/M82	0.76116	0.481
6-3/M82	1.25576	1
7-1/M82	1.52361	0.992
7-2/M82	0.77708	0.578
9-3-2/M82	1.2296	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.91418	1
IL2-6/WTpooled	0.96044	1
IL7-5/WTpooled	0.82371	1
IL7-3/WTpooled	0.86712	0.418
IL12-4/WTpooled	0.93587	1
IL1-4/WTpooled	1.04902	1
WT/WTpooled	1.04174	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	1.39815	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95677	1
DC3000/delta hrp 6h	0.95873	0.95
DC3000/delta hrp 12h	1.33691
DC3000/delta hrp 24h	0.64966	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.79652
DC3000 delta B/DC3000 delta AB	0.4526	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.95152	1
Exp 36h	0.70212	0.434
Exp 60h	0.70932	0.29

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01247	1
Var 0h	0.54079	0.374
Var 12h I row2-row1	0.85439	0.565
Var 12h NI row2-row1	0.93438	0.713
Var 36h I row2-row1	0.7884	0.374
Var 36h NI row2-row1	1.03327	1
Var 60h I row2-row1	1.01392	1
Var 60h NI row2-row1	1.0354	1
Time course 0hI-0hNI	1.04917	0.486
Time course 12hI-12hNI	0.91656	0.182
Time course 36hI-36hNI	0.80916	0.023
Time course 60hI-60hNI	0.40113	0.005

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)	1.11913	0.571
transgenic ySAMdc/azygous control (breaker)	2.36582	0.178
transgenic ySAMdc/azygous control (red)	0.92641	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.19677	0.046

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.97087	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.51815	0.105
Manapal/WT (break)	1.26419	0.381
Manapal/WT (red)	0.75382	0.242