Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.13.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02339	0.964
27DAP/17DAP	0.96898	0.994
39DAP/27DAP	1.01404	0.876
41DAP/39DAP	1.28528	0.422
42DAP/41DAP	1.22325	0.841
43DAP/42DAP	0.96252	0.895
47DAP/43DAP	0.99991	0.966
52DAP/47DAP	1.03667	0.949
57DAP/52DAP	0.91538	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93425	0.132
17DAP/reference	1.03551	0.229
27DAP/reference	0.99472	0.797
39DAP/reference	1.04956	0.286
41DAP/reference	1.01994	0.759
42DAP/reference	0.96474	0.045
43DAP/reference	0.98359	0.745
47DAP/reference	1.01425	0.84
52DAP/reference	0.93265	0.33
57DAP/reference	1.10112	0.024

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98246	0.732
27DAP/17DAP	1.00245	1
39DAP/27DAP	1.04316	0.626
41DAP/39DAP	1.02762	0.817
42DAP/41DAP	1.08563	0.663
43DAP/42DAP	1.01767	0.413
47DAP/43DAP	1.02021	0.897
52DAP/47DAP	0.94068	0.645
57DAP/52DAP	1.0113	0.984
57DAP/7DAP	0.96913	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83817	0.069
17DAP/reference	0.97857	0.518
27DAP/reference	0.8066	0.025
39DAP/reference	0.98618	0.64
41DAP/reference	1.07089	0.524
42DAP/reference	0.8147	0.066
43DAP/reference	0.89545	0.166
47DAP/reference	0.8514	0.101
52DAP/reference	0.94289	0.332
57DAP/reference	1.02064	0.966

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9829	0.736
17DAP/reference	0.92797	0.08
27DAP/reference	0.90712	0.079
39DAP/reference	0.92823	0.183
41DAP/reference	0.90933	0.105
42DAP/reference	1.00526	1
43DAP/reference	0.9479	0.459
47DAP/reference	1.07414	0.311
52DAP/reference	0.92429	0.029
57DAP/reference	0.97832	0.549

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98342	0.653
17DAP/reference	0.9832	0.681
27DAP/reference	0.79655	0.067
39DAP/reference	0.81347	0.019
41DAP/reference	0.89625	0.077
42DAP/reference	0.75857	0.049
43DAP/reference	1.00605	0.858
47DAP/reference	0.95793	0.296
52DAP/reference	0.80295	0.242
57DAP/reference	0.78793	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01923	0.966
26DAP/20DAP	1.07208	0.674
34DAP/26DAP	1.0086	1
51DAP/34DAP	1.0083	0.978
52DAP/51DAP	1.03655	0.722
53DAP/52DAP	0.99969	0.99
55DAP/53DAP	1.03673	0.834
57DAP/55DAP	0.93289	0.789
62DAP/57DAP	0.98267	1
68DAP/62DAP	1.01009	1
68DAP/14DAP	1.17944	0.125

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.94274	0.304

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.9346
Mature Green Tomato/Ripe Tomato	1.11115	0.898
Immature Eggplant/Mature Eggplant	2.05322	0.05
Ripe Pepper/Ripe Tomato	0.32684	0.293
Mature Eggplant/Ripe Tomato	0.26526	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.89022	0.651
1-1-2/M82	1.01291	1
12-2/M82	1.02601	1
12-4/M82	1.01508	1
1-3/M82	0.98142	1
2-1-1/M82	0.87449	0.465
2-1/M82	1.05234	1
2-6/M82	0.95509	1
3-2/M82	1.10329	0.443
4-1-1/M82	0.96611	1
4-1/M82	0.87927	0.665
4-3-2/M82	0.93449	0.698
4-3/M82	0.95175	0.72
5-3/M82	0.96075	1
6-2/M82	1.00822	1
6-3/M82	0.9243	1
7-1/M82	0.99456	1
7-2/M82	0.98033	0.881
9-3-2/M82	1.03407	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.3078
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.69835	0.31
IL12-4/WTpooled	0.82897	0.554
IL1-4/WTpooled	0.79163
WT/WTpooled	1.08261

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	2.48533	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93559	0.868
DC3000/delta hrp 6h	1.4386	1
DC3000/delta hrp 12h	1.01814	1
DC3000/delta hrp 24h	1.13342	0.553

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.02861	0.355
DC3000 delta B/DC3000 delta AB	1.02137	0.636

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	2.29176	0.409
Exp 60h	2.05825	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.016	1
Var 0h	0.68972	0.457
Var 12h I row2-row1	1.21497	0.196
Var 12h NI row2-row1	1.01823	1
Var 36h I row2-row1	1.00406	1
Var 36h NI row2-row1	0.85705	0.478
Var 60h I row2-row1	1.10077	1
Var 60h NI row2-row1	1.1438	0.904
Time course 0hI-0hNI	1.03876	1
Time course 12hI-12hNI	1.03759	0.803
Time course 36hI-36hNI	1.05433	0.401
Time course 60hI-60hNI	1.52996	0.019

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)	0.88539	0.485
transgenic ySAMdc/azygous control (breaker)	2.92862	0.166
transgenic ySAMdc/azygous control (red)	1.61893	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94545	0.067

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.09317	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.13816	0.307
Manapal/WT (break)	1.03404	1
Manapal/WT (red)	0.26724	0.181