Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.11.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.54228	0.056
27DAP/17DAP	0.96092	0.958
39DAP/27DAP	0.79286	0.346
41DAP/39DAP	1.36454	0.416
42DAP/41DAP	1.37986	0.458
43DAP/42DAP	0.96337	0.909
47DAP/43DAP	1.01001	0.895
52DAP/47DAP	1.35654	0.434
57DAP/52DAP	1.01779	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29871	0.17
17DAP/reference	0.78456	0.016
27DAP/reference	0.79796	0.057
39DAP/reference	0.90519	0.37
41DAP/reference	1.07291	0.759
42DAP/reference	0.81643	0.021
43DAP/reference	1.01589	0.924
47DAP/reference	0.83465	0.025
52DAP/reference	0.84512	0.143
57DAP/reference	1.02638	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80904	0.109
27DAP/17DAP	0.9172	0.614
39DAP/27DAP	1.00578	1
41DAP/39DAP	0.91349	0.434
42DAP/41DAP	1.0223	1
43DAP/42DAP	0.99057	0.902
47DAP/43DAP	1.05072	0.848
52DAP/47DAP	1.019	0.945
57DAP/52DAP	1.02876	0.885
57DAP/7DAP	0.84972	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20447	0.173
17DAP/reference	1.0725	0.399
27DAP/reference	1.14402	0.246
39DAP/reference	1.2144	0.198
41DAP/reference	1.28726	0.017
42DAP/reference	1.05308	0.686
43DAP/reference	1.31069	0.01
47DAP/reference	0.87898	0.383
52DAP/reference	1.18324	0.062
57DAP/reference	1.19734	0.066

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34036	0.069
17DAP/reference	0.96267	0.576
27DAP/reference	0.69306	0.282
39DAP/reference	1.30697	1
41DAP/reference	0.73555	0.089
42DAP/reference	0.76518	0.15
43DAP/reference	0.99712	0.633
47DAP/reference	1.04553	1
52DAP/reference	0.73046	0.086
57DAP/reference	0.74982	0.03

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95606	0.391
17DAP/reference	0.88075	0.358
27DAP/reference	1.11677	0.125
39DAP/reference	1.09937	0.65
41DAP/reference	1.22234	0.045
42DAP/reference	1.05433	1
43DAP/reference	1.14161	0.432
47DAP/reference	0.72324	0.015
52DAP/reference	1.09024	0.941
57DAP/reference	1.09032	1

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.87657	0.733
26DAP/20DAP	1.1774	0.604
34DAP/26DAP	0.86392	0.61
51DAP/34DAP	0.98469	0.856
52DAP/51DAP	1.14514	0.588
53DAP/52DAP	1.11265	0.37
55DAP/53DAP	1.14521	0.494
57DAP/55DAP	0.98268	0.891
62DAP/57DAP	1.42241	0.445
68DAP/62DAP	1.41754	0.464
68DAP/14DAP	0.39177	0.086

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.64648	0.024

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.0958	0.835
Immature Eggplant/Mature Eggplant	4.59863	0.05
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.26053

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.95914
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.71611
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	0.90218	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.9207
IL2-6/WTpooled	0.96335	1
IL7-5/WTpooled	1.46269	0.792
IL7-3/WTpooled	1.04616	1
IL12-4/WTpooled	1.19419	0.557
IL1-4/WTpooled	0.88432	0.699
WT/WTpooled	1.01773	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	1.21327	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.27907	0.692
DC3000/delta hrp 6h	0.9668	0.95
DC3000/delta hrp 12h	1.06189	1
DC3000/delta hrp 24h	5.08685	0.028

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.4823	0.052
DC3000 delta B/DC3000 delta AB	1.35033	0.089

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.62697	1
Exp 36h	1.47511	0.693
Exp 60h	0.93422	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99513	1
Var 0h	0.7897	0.457
Var 12h I row2-row1	1.07066	0.58
Var 12h NI row2-row1	0.94864	0.627
Var 36h I row2-row1	1.08995	1
Var 36h NI row2-row1	0.95243	0.743
Var 60h I row2-row1	0.92699	0.832
Var 60h NI row2-row1	1.02391	1
Time course 0hI-0hNI	0.96799	0.824
Time course 12hI-12hNI	0.98215	0.864
Time course 36hI-36hNI	0.95888	0.468
Time course 60hI-60hNI	1.50793	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)	1.12037	0.212
transgenic ySAMdc/azygous control (breaker)	0.50245	0.134
transgenic ySAMdc/azygous control (red)	1.09376	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.88881	0.052

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.00961	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.75982	1
Manapal/WT (break)	0.63818	0.333
Manapal/WT (red)	0.77054	0.274