Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.13.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10675	0.615
27DAP/17DAP	0.99257	0.973
39DAP/27DAP	0.91083	0.414
41DAP/39DAP	1.13116	0.459
42DAP/41DAP	1.24152	0.485
43DAP/42DAP	1.23153	0.722
47DAP/43DAP	1.07354	0.563
52DAP/47DAP	0.98389	0.932
57DAP/52DAP	0.8996	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00411	1
17DAP/reference	1.05471	0.229
27DAP/reference	1.0368	0.487
39DAP/reference	1.09998	0.545
41DAP/reference	1.08901	0.241
42DAP/reference	1.00076	0.645
43DAP/reference	1.02328	0.596
47DAP/reference	1.03063	0.463
52DAP/reference	1.09798	0.407
57DAP/reference	1.00768	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03794	0.508
27DAP/17DAP	1.05741	0.811
39DAP/27DAP	1.02268	0.799
41DAP/39DAP	1.08881	0.612
42DAP/41DAP	0.98882	0.884
43DAP/42DAP	0.95285	0.367
47DAP/43DAP	1.0017	1
52DAP/47DAP	0.99329	0.951
57DAP/52DAP	1.00553	1
57DAP/7DAP	0.97586	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87864	0.07
17DAP/reference	0.91772	0.011
27DAP/reference	0.89849	0.011
39DAP/reference	0.91691	0.064
41DAP/reference	0.9196	0.07
42DAP/reference	0.99093	0.612
43DAP/reference	0.95723	0.151
47DAP/reference	0.92991	0.128
52DAP/reference	0.93075	0.083
57DAP/reference	1.00616	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98435	0.786
17DAP/reference	0.90135	0.077
27DAP/reference	0.85857	0.09
39DAP/reference	0.89653	0.147
41DAP/reference	0.97446	0.432
42DAP/reference	1.03306	1
43DAP/reference	0.90978	0.206
47DAP/reference	1.159	0.079
52DAP/reference	0.89733	0.078
57DAP/reference	1.00306	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88219	0.047
17DAP/reference	0.99032	0.751
27DAP/reference	0.9254	0.133
39DAP/reference	0.90964	0.101
41DAP/reference	0.8937	0.037
42DAP/reference	0.80522	0.019
43DAP/reference	0.87448	0.098
47DAP/reference	1.07093	0.239
52DAP/reference	0.894	0.319
57DAP/reference	0.81199	0.064

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01844	0.966
26DAP/20DAP	0.94636	1
34DAP/26DAP	1.03344	1
51DAP/34DAP	1.01011	0.988
52DAP/51DAP	0.96818	1
53DAP/52DAP	1.13962	0.121
55DAP/53DAP	0.9276	0.807
57DAP/55DAP	1.13029	0.898
62DAP/57DAP	1.05596	0.678
68DAP/62DAP	1.07088	0.878
68DAP/14DAP	0.96679	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96415	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.67528	0.179
Mature Green Tomato/Ripe Tomato	0.89897	0.411
Immature Eggplant/Mature Eggplant	1.16078	0.379
Ripe Pepper/Ripe Tomato	3.57006	1
Mature Eggplant/Ripe Tomato	1.55536	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.08526	1
1-1-2/M82	1.01845	1
12-2/M82	0.97508	0.955
12-4/M82	0.92764	0.619
1-3/M82	0.98853	1
2-1-1/M82	0.98208	1
2-1/M82	1.36519	1
2-6/M82	0.93907	1
3-2/M82	0.98452
4-1-1/M82	1.11753	0.977
4-1/M82	0.90924	0.737
4-3-2/M82	0.88125	0.698
4-3/M82	0.98094	1
5-3/M82	1.07996	1
6-2/M82	1.01431	1
6-3/M82	1.0087	1
7-1/M82	0.92268
7-2/M82	0.90968	0.796
9-3-2/M82	0.92525	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.97409	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.08463	1
IL12-4/WTpooled	1.09542	0.737
IL1-4/WTpooled	0.86565	0.699
WT/WTpooled	1.04504	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	1.46417	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07362	0.921
DC3000/delta hrp 6h	1.20149	1
DC3000/delta hrp 12h	1.05146	1
DC3000/delta hrp 24h	1.06735	0.483

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.05372	0.042
DC3000 delta B/DC3000 delta AB	1.04672	0.565

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.12303	1
Exp 36h	1.45478	0.693
Exp 60h	1.37927	0.221

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97488	1
Var 0h	1.16336	0.936
Var 12h I row2-row1	1.10562	0.283
Var 12h NI row2-row1	0.97979	0.906
Var 36h I row2-row1	0.97382	1
Var 36h NI row2-row1	0.93293	0.549
Var 60h I row2-row1	1.19048	0.562
Var 60h NI row2-row1	1.09751	0.904
Time course 0hI-0hNI	1.05101	0.852
Time course 12hI-12hNI	1.06853	0.615
Time course 36hI-36hNI	1.06702	0.101
Time course 60hI-60hNI	1.3878	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)	0.95664	0.485
transgenic ySAMdc/azygous control (breaker)	1.07743	1
transgenic ySAMdc/azygous control (red)	1.02496	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97667	0.12

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.65586	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.57625	0.093
Manapal/WT (break)	0.90325	1
Manapal/WT (red)	0.78797	0.216