Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.20.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96687	0.652
27DAP/17DAP	0.98483	0.975
39DAP/27DAP	0.92162	0.641
41DAP/39DAP	1.47337	0.498
42DAP/41DAP	1.04439	1
43DAP/42DAP	0.97138	0.914
47DAP/43DAP	1.14474	0.965
52DAP/47DAP	1.52842	0.543
57DAP/52DAP	0.90508	0.852

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1278	0.587
17DAP/reference	0.99405	0.858
27DAP/reference	0.91052	0.406
39DAP/reference	1.01455	0.828
41DAP/reference	0.82953	0.341
42DAP/reference	0.80087
43DAP/reference	0.62901	0.015
47DAP/reference	1.54314	0.001
52DAP/reference	0.95823	0.515
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.44956	0.224
27DAP/17DAP	1.02748	0.967
39DAP/27DAP	1.34775	0.581
41DAP/39DAP	1.13368	0.895
42DAP/41DAP	0.91874	0.486
43DAP/42DAP	1.03786	0.788
47DAP/43DAP	1.19173	0.618
52DAP/47DAP	1.14622	0.799
57DAP/52DAP	1.3114	0.272
57DAP/7DAP	1.10269	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9181	0.326
17DAP/reference	0.82577	0.011
27DAP/reference	0.77177	0.01
39DAP/reference	0.85995	0.034
41DAP/reference	0.90321	0.194
42DAP/reference	0.8669	0.014
43DAP/reference	0.85331	0.011
47DAP/reference	0.9139	0.293
52DAP/reference	0.85509	0.035
57DAP/reference	0.86315	0.022

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8103	0.1
17DAP/reference	0.72227	0.009
27DAP/reference	0.75709	0.028
39DAP/reference	0.83001	0.091
41DAP/reference	0.98947	0.545
42DAP/reference	0.45949	0.01
43DAP/reference	1.00725	0.681
47DAP/reference	0.92239	0.277
52DAP/reference	0.73266	0.008
57DAP/reference	0.88561	0.226

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89091	0.183
17DAP/reference	0.96759	0.579
27DAP/reference	0.83105	0.027
39DAP/reference	0.81093	0.018
41DAP/reference	0.85021	0.035
42DAP/reference	0.73699	0.059
43DAP/reference	0.81125	0.084
47DAP/reference	0.87139	0.066
52DAP/reference	0.65394	0.058
57DAP/reference	0.89755	0.138

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00488	1
26DAP/20DAP	1.83553	0.223
34DAP/26DAP	1.59763	0.542
51DAP/34DAP	1.19755	0.445
52DAP/51DAP	1.3199	0.238
53DAP/52DAP	1.22771	0.608
55DAP/53DAP	0.99042	0.852
57DAP/55DAP	0.56611
62DAP/57DAP	0.90449	0.871
68DAP/62DAP	1.70937	0.413
68DAP/14DAP	1.33067	0.279

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.86369	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.95497	0.569
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.66855	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.17816
1-1-2/M82	0.81318	0.804
12-2/M82	N/A	N/A
12-4/M82	0.73854	1
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	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	0.81824
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.18964	1
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	0.77234	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.86987	0.243
IL2-6/WTpooled	1.02577	1
IL7-5/WTpooled	1.01372	0.792
IL7-3/WTpooled	1.07317	0.362
IL12-4/WTpooled	1.05279	0.785
IL1-4/WTpooled	1.03534	0.426
WT/WTpooled	0.83678	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	1.30492	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.28199	0.921
DC3000/delta hrp 6h	0.92593	0.95
DC3000/delta hrp 12h	0.95765	1
DC3000/delta hrp 24h	1.40623	0.595

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	1.36597	0.249

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.88593	1
Exp 36h	0.79993	0.661
Exp 60h	0.65164	0.32

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98174	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.24524	0.406
Var 12h NI row2-row1	1.09562	0.34
Var 36h I row2-row1	1.11022	0.742
Var 36h NI row2-row1	1.6216	1
Var 60h I row2-row1	1.03908	1
Var 60h NI row2-row1	1.31634	0.904
Time course 0hI-0hNI	0.93369	0.572
Time course 12hI-12hNI	0.99922	1
Time course 36hI-36hNI	1.02166	0.722
Time course 60hI-60hNI	1.12608	0.187

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)	1.18672	0.372
transgenic ySAMdc/azygous control (breaker)	1.43379	0.172
transgenic ySAMdc/azygous control (red)	1.00739	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02974	0.234

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.32774	0.084
Manapal/WT (break)	1.24475	0.381
Manapal/WT (red)	0.61632	0.229