Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.1.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02276	1
27DAP/17DAP	1.12962	0.849
39DAP/27DAP	1.08105	0.965
41DAP/39DAP	1.08472	0.788
42DAP/41DAP	1.04755	0.938
43DAP/42DAP	1.04627	1
47DAP/43DAP	1.05376	0.943
52DAP/47DAP	0.73095	0.316
57DAP/52DAP	1.06341	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89735	0.177
17DAP/reference	0.90852	0.208
27DAP/reference	0.94652	0.385
39DAP/reference	1.11426	0.174
41DAP/reference	0.96528	0.667
42DAP/reference	1.00141	0.628
43DAP/reference	1.02123	1
47DAP/reference	1.05236	1
52DAP/reference	1.07341	0.991
57DAP/reference	1.15501	0.173

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90567	0.428
27DAP/17DAP	1.14787	0.429
39DAP/27DAP	0.928	0.371
41DAP/39DAP	1.1293	0.484
42DAP/41DAP	0.97321	0.757
43DAP/42DAP	0.98775	0.875
47DAP/43DAP	1.07793	0.5
52DAP/47DAP	1.06806	0.724
57DAP/52DAP	1.02159	0.941
57DAP/7DAP	1.04498	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84676	0.073
17DAP/reference	1.01057	0.693
27DAP/reference	0.9564	0.325
39DAP/reference	0.9542	0.411
41DAP/reference	0.89182	0.213
42DAP/reference	0.91105	0.248
43DAP/reference	1.1027	0.873
47DAP/reference	0.9501	0.383
52DAP/reference	0.97967	0.523
57DAP/reference	1.06071	0.654

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82589	0.083
17DAP/reference	0.72655	0.041
27DAP/reference	1.10544	0.278
39DAP/reference	1.07847	1
41DAP/reference	1.01845	0.649
42DAP/reference	1.05047	1
43DAP/reference	1.0227	0.863
47DAP/reference	0.97796	0.446
52DAP/reference	0.98821	0.576
57DAP/reference	1.09556	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93178	0.455
17DAP/reference	0.99142	0.727
27DAP/reference	0.84787	0.126
39DAP/reference	0.96062	0.43
41DAP/reference	0.91513	0.185
42DAP/reference	1.0396	0.863
43DAP/reference	1.10136	0.49
47DAP/reference	0.9962	0.687
52DAP/reference	0.85096	0.204
57DAP/reference	1.30805	0.079

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.18522	0.786
26DAP/20DAP	1.14904	0.404
34DAP/26DAP	0.96995	0.954
51DAP/34DAP	0.74585	0.06
52DAP/51DAP	1.17544	0.261
53DAP/52DAP	0.97692	0.868
55DAP/53DAP	1.10356	0.927
57DAP/55DAP	1.00006	0.953
62DAP/57DAP	1.22932	0.723
68DAP/62DAP	1.03536	0.945
68DAP/14DAP	0.72794	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.30447	0.033

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.72317	0.197
Mature Green Tomato/Ripe Tomato	0.98524	0.835
Immature Eggplant/Mature Eggplant	1.18084	0.215
Ripe Pepper/Ripe Tomato	1.0742	1
Mature Eggplant/Ripe Tomato	0.90777	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.35029	0.742
1-1-2/M82	1.0669	1
12-2/M82	1.30853	1
12-4/M82	1.1995
1-3/M82	0.79779
2-1-1/M82	0.97428	1
2-1/M82	1.11033
2-6/M82	0.84852	1
3-2/M82	1.43137
4-1-1/M82	1.09596	1
4-1/M82	1.24602
4-3-2/M82	1.31121
4-3/M82	1.45311	0.268
5-3/M82	0.98268	1
6-2/M82	1.51794	1
6-3/M82	1.14609	1
7-1/M82	1.05186
7-2/M82	1.14066
9-3-2/M82	0.66103

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.82492	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.6849	0.31
IL12-4/WTpooled	0.84441	1
IL1-4/WTpooled	1.21274
WT/WTpooled	1.05815	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	0.94081	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08294	0.921
DC3000/delta hrp 6h	0.93776	0.95
DC3000/delta hrp 12h	1.10856	1
DC3000/delta hrp 24h	0.95767	0.711

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.87847	0.093
DC3000 delta B/DC3000 delta AB	0.8289	0.029

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.04168	1
Exp 36h	1.21527	1
Exp 60h	1.04947	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00106	1
Var 0h	0.74058	1
Var 12h I row2-row1	0.89213	0.705
Var 12h NI row2-row1	1.00111	1
Var 36h I row2-row1	1.08488	1
Var 36h NI row2-row1	1.14288	1
Var 60h I row2-row1	0.87448	0.439
Var 60h NI row2-row1	1.04563	1
Time course 0hI-0hNI	0.94807	0.729
Time course 12hI-12hNI	0.92979	0.398
Time course 36hI-36hNI	0.95628	0.295
Time course 60hI-60hNI	0.64622	0.007

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)	0.93996	0.301
transgenic ySAMdc/azygous control (breaker)	0.92607	0.49
transgenic ySAMdc/azygous control (red)	1.08307	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0726	0.073

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.04829	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.31519	0.105
Manapal/WT (break)	1.03132	1
Manapal/WT (red)	1.19252	0.413