Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.2.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07062	0.851
27DAP/17DAP	1.25689	0.742
39DAP/27DAP	0.74727	0.392
41DAP/39DAP	1.26747	0.432
42DAP/41DAP	0.95507	1
43DAP/42DAP	1.06593	0.993
47DAP/43DAP	1.07283	0.733
52DAP/47DAP	0.72459	0.267
57DAP/52DAP	0.95455	0.938

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.49138	0.085
17DAP/reference	1.23229	0.064
27DAP/reference	1.21518	0.056
39DAP/reference	1.13249	0.14
41DAP/reference	1.34738	0.043
42DAP/reference	1.23283	0.001
43DAP/reference	1.13315	0.518
47DAP/reference	1.11642	0.031
52DAP/reference	1.12734	0.167
57DAP/reference	0.83057	0.065

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91518	0.47
27DAP/17DAP	1.0336	0.969
39DAP/27DAP	1.07167	0.57
41DAP/39DAP	0.9477	0.91
42DAP/41DAP	0.94131	0.599
43DAP/42DAP	1.03251	0.746
47DAP/43DAP	0.98199	0.911
52DAP/47DAP	0.93851	0.77
57DAP/52DAP	1.08807	0.67
57DAP/7DAP	1.1194	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99707	0.758
17DAP/reference	0.93334	0.056
27DAP/reference	0.94555	0.094
39DAP/reference	0.94533	0.073
41DAP/reference	0.82782	0.076
42DAP/reference	0.77	0.01
43DAP/reference	0.93202	0.166
47DAP/reference	0.88854	0.168
52DAP/reference	0.97353	0.477
57DAP/reference	0.91253	0.207

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.38642	0.055
17DAP/reference	1.70734	0.008
27DAP/reference	1.40377	0.044
39DAP/reference	1.27745	0.021
41DAP/reference	1.3483	0.129
42DAP/reference	1.18328	0.281
43DAP/reference	1.38958	0.105
47DAP/reference	1.05016	0.332
52DAP/reference	1.3933	0.008
57DAP/reference	1.28038	0.048

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05003	0.356
17DAP/reference	1.14979	0.298
27DAP/reference	0.83042	0.174
39DAP/reference	1.01448	0.836
41DAP/reference	0.95032	0.119
42DAP/reference	0.84985	0.108
43DAP/reference	1.03828	0.973
47DAP/reference	0.95291	0.383
52DAP/reference	0.91242	0.296
57DAP/reference	0.66316	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.20175	0.966
26DAP/20DAP	0.83569	0.317
34DAP/26DAP	1.01463	1
51DAP/34DAP	1.03839	0.883
52DAP/51DAP	1.05774	0.776
53DAP/52DAP	1.02045	1
55DAP/53DAP	1.11361	0.335
57DAP/55DAP	0.99498	0.955
62DAP/57DAP	1.06127	1
68DAP/62DAP	0.86808	0.641
68DAP/14DAP	0.8678	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.72052	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.45889	0.058
Mature Green Tomato/Ripe Tomato	0.7603	0.024
Immature Eggplant/Mature Eggplant	0.31778	0.056
Ripe Pepper/Ripe Tomato	17.6158	0.258
Mature Eggplant/Ripe Tomato	30.5346	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.08778	1
1-1-2/M82	0.94271	0.958
12-2/M82	1.1328	1
12-4/M82	0.97157	1
1-3/M82	0.9164	0.501
2-1-1/M82	1.16389	0.403
2-1/M82	1.16349	1
2-6/M82	0.96629	1
3-2/M82	0.99065
4-1-1/M82	0.92211	1
4-1/M82	1.2054
4-3-2/M82	1.2587	1
4-3/M82	1.0235	1
5-3/M82	0.9554	1
6-2/M82	0.96602	1
6-3/M82	1.28055	1
7-1/M82	0.94091	0.44
7-2/M82	0.95599	0.881
9-3-2/M82	0.79069	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.95825	1
IL2-6/WTpooled	1.15047	0.427
IL7-5/WTpooled	0.90181	1
IL7-3/WTpooled	1.34746	1
IL12-4/WTpooled	0.81982	0.71
IL1-4/WTpooled	1.10472	1
WT/WTpooled	0.90898	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	0.90898

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02921	0.921
DC3000/delta hrp 6h	1.06342	1
DC3000/delta hrp 12h	1.47315	1
DC3000/delta hrp 24h	0.9407	0.629

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.09818	1
DC3000 delta B/DC3000 delta AB	0.97994	0.916

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.04168	1
Exp 36h	0.7967	0.589
Exp 60h	0.62849	0.259

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97313	1
Var 0h	0.93545	1
Var 12h I row2-row1	0.92629	0.77
Var 12h NI row2-row1	0.8761	0.82
Var 36h I row2-row1	1.20514	1
Var 36h NI row2-row1	0.72649
Var 60h I row2-row1	0.96012	0.285
Var 60h NI row2-row1	1.14611	0.904
Time course 0hI-0hNI	0.99785	1
Time course 12hI-12hNI	0.94541	0.777
Time course 36hI-36hNI	0.94328	0.352
Time course 60hI-60hNI	1.28257	0.022

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)	0.87096	0.32
transgenic ySAMdc/azygous control (breaker)	1.93323	0.248
transgenic ySAMdc/azygous control (red)	0.8628	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.93623	0.112

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	3.16579	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.354	0.14
Manapal/WT (break)	2.56949	0.381
Manapal/WT (red)	0.98822	0.863