Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.11.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83432	0.217
27DAP/17DAP	1.02671	0.927
39DAP/27DAP	0.99997	0.876
41DAP/39DAP	1.04963	0.426
42DAP/41DAP	0.99761	1
43DAP/42DAP	0.97444	0.77
47DAP/43DAP	0.87653	0.584
52DAP/47DAP	0.99341	0.933
57DAP/52DAP	1.04025	0.948

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90299	0.075
17DAP/reference	0.90856	0.169
27DAP/reference	0.93134	0.286
39DAP/reference	0.95664	0.24
41DAP/reference	0.85919	0.114
42DAP/reference	0.97291	0.218
43DAP/reference	0.98676	0.745
47DAP/reference	0.97152	0.127
52DAP/reference	0.91665	0.195
57DAP/reference	1.07609	0.122

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94371	0.277
27DAP/17DAP	1.03406
39DAP/27DAP	1.00541	0.862
41DAP/39DAP	0.98223	0.98
42DAP/41DAP	1.0037	1
43DAP/42DAP	1.04833	0.664
47DAP/43DAP	1.01624	0.88
52DAP/47DAP	0.95451	0.585
57DAP/52DAP	0.97214	0.612
57DAP/7DAP	0.99398	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02351	0.813
17DAP/reference	1.03511	0.221
27DAP/reference	1.00959	0.804
39DAP/reference	1.02755	0.081
41DAP/reference	1.05557	0.416
42DAP/reference	1.09678	0.024
43DAP/reference	0.97894	0.175
47DAP/reference	0.92902	0.222
52DAP/reference	0.97083	0.066
57DAP/reference	0.99987	0.831

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94764	0.342
17DAP/reference	0.96206	0.378
27DAP/reference	0.91763	0.129
39DAP/reference	0.91312	0.105
41DAP/reference	0.87545	0.053
42DAP/reference	0.89338	0.035
43DAP/reference	0.93386	0.352
47DAP/reference	0.88713	0.028
52DAP/reference	0.8801	0.012
57DAP/reference	0.92723	0.135

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0162	0.74
17DAP/reference	0.95055	0.186
27DAP/reference	0.98102	0.416
39DAP/reference	0.98442	0.328
41DAP/reference	0.94614	0.331
42DAP/reference	0.92599	0.134
43DAP/reference	0.9833	0.523
47DAP/reference	0.89756	0.145
52DAP/reference	1.00764	0.952
57DAP/reference	0.99276	0.718

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01505	0.966
26DAP/20DAP	1.03821	0.896
34DAP/26DAP	1.02734	0.819
51DAP/34DAP	1.08502	0.303
52DAP/51DAP	0.95492	1
53DAP/52DAP	1.11919	0.662
55DAP/53DAP	0.95751	0.648
57DAP/55DAP	0.99371	0.96
62DAP/57DAP	0.93161	0.871
68DAP/62DAP	1.49245	0.305
68DAP/14DAP	1.60539	0.026

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.99497	0.774

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.65701	0.063
Mature Green Tomato/Ripe Tomato	0.80166	0.148
Immature Eggplant/Mature Eggplant	1.1635	0.288
Ripe Pepper/Ripe Tomato	1.11629	1
Mature Eggplant/Ripe Tomato	5.29075	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.92566	0.934
1-1-2/M82	0.94752	1
12-2/M82	0.97949	0.955
12-4/M82	1.00239	1
1-3/M82	0.97961	1
2-1-1/M82	0.89856	0.784
2-1/M82	0.9284	1
2-6/M82	0.97132	1
3-2/M82	0.9907	0.752
4-1-1/M82	0.97321	1
4-1/M82	0.85263	1
4-3-2/M82	0.81205	0.698
4-3/M82	0.95863	1
5-3/M82	1.00115	1
6-2/M82	0.93499	1
6-3/M82	1.04216	1
7-1/M82	1.05109	0.992
7-2/M82	0.96282	0.881
9-3-2/M82	0.88056	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.20628	0.277
IL2-6/WTpooled	1.11733	0.46
IL7-5/WTpooled	1.05748	1
IL7-3/WTpooled	0.63763	0.294
IL12-4/WTpooled	0.79407	0.71
IL1-4/WTpooled	0.90526	0.457
WT/WTpooled	1.06093	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	0.76242	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04029	0.921
DC3000/delta hrp 6h	0.96594	0.95
DC3000/delta hrp 12h	0.93498	1
DC3000/delta hrp 24h	1.02589	0.604

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.00482	1
DC3000 delta B/DC3000 delta AB	0.97526	0.766

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.04003	1
Exp 36h	1.34242	1
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99903	1
Var 0h	0.95567	0.933
Var 12h I row2-row1	1.15007	0.242
Var 12h NI row2-row1	0.98177	0.906
Var 36h I row2-row1	0.95991	1
Var 36h NI row2-row1	0.97144	0.791
Var 60h I row2-row1	1.15078	1
Var 60h NI row2-row1	1.02844	0.904
Time course 0hI-0hNI	1.03385	1
Time course 12hI-12hNI	0.99403	1
Time course 36hI-36hNI	1.00105	0.874
Time course 60hI-60hNI	1.00691	1

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)	1.08089	0.408
transgenic ySAMdc/azygous control (breaker)	0.99717	1
transgenic ySAMdc/azygous control (red)	1.23527	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98459	0.177

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.2492	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.53587	0.172
Manapal/WT (break)	0.85843	1
Manapal/WT (red)	0.9583	0.728