Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.11.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94025	0.627
27DAP/17DAP	1.12142	0.883
39DAP/27DAP	0.80982	0.397
41DAP/39DAP	1.34777	0.349
42DAP/41DAP	1.00409	1
43DAP/42DAP	0.92924	0.877
47DAP/43DAP	0.85396	0.533
52DAP/47DAP	1.38201	0.305
57DAP/52DAP	0.97248	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9555	0.098
17DAP/reference	0.9442	0.085
27DAP/reference	0.92504	0.064
39DAP/reference	0.96049	0.276
41DAP/reference	0.945	0.114
42DAP/reference	0.91696	0.038
43DAP/reference	1.00428	0.982
47DAP/reference	0.91245	0.032
52DAP/reference	0.93578	0.152
57DAP/reference	0.99102	0.639

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97365	0.663
27DAP/17DAP	1.0564	0.885
39DAP/27DAP	1.10023	0.369
41DAP/39DAP	1.09492	0.876
42DAP/41DAP	0.96441	0.746
43DAP/42DAP	1.05583	0.585
47DAP/43DAP	0.99129	0.971
52DAP/47DAP	1.0235	0.919
57DAP/52DAP	1.03703	0.818
57DAP/7DAP	1.15513	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85032
17DAP/reference	0.93041	0.056
27DAP/reference	0.94449	0.01
39DAP/reference	0.98809	0.23
41DAP/reference	0.92232	0.062
42DAP/reference	0.96415	0.211
43DAP/reference	0.92797	0.079
47DAP/reference	0.89501	0.101
52DAP/reference	0.90713	0.038
57DAP/reference	0.95075	0.27

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03365	0.438
17DAP/reference	0.98921	0.659
27DAP/reference	0.97233	0.407
39DAP/reference	0.99286	0.621
41DAP/reference	1.02607	1
42DAP/reference	0.96172	0.189
43DAP/reference	1.063	0.598
47DAP/reference	0.97376	0.349
52DAP/reference	1.04471	0.322
57DAP/reference	0.95718	0.433

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92347	0.098
17DAP/reference	0.99278	0.792
27DAP/reference	0.94259	0.092
39DAP/reference	0.95056	0.122
41DAP/reference	0.92643	0.055
42DAP/reference	0.896	0.019
43DAP/reference	0.91945	0.056
47DAP/reference	0.96245	0.231
52DAP/reference	0.89429	0.145
57DAP/reference	0.7508	0.044

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05252	0.966
26DAP/20DAP	0.94024	1
34DAP/26DAP	0.99521	0.991
51DAP/34DAP	1.05848	0.785
52DAP/51DAP	0.96229	1
53DAP/52DAP	0.93691	0.621
55DAP/53DAP	1.10903	0.645
57DAP/55DAP	0.88514	0.403
62DAP/57DAP	1.07667	0.515
68DAP/62DAP	0.97064	0.81
68DAP/14DAP	1.08736	0.676

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.86875	0.322

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.69555	0.086
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.73378	1
Mature Eggplant/Ripe Tomato	1.50834

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00568	1
1-1-2/M82	0.89107	1
12-2/M82	1.20561	1
12-4/M82	0.94298	1
1-3/M82	0.93347	1
2-1-1/M82	1.03058
2-1/M82	N/A	N/A
2-6/M82	0.98275	1
3-2/M82	0.64926
4-1-1/M82	1.03618	1
4-1/M82	0.93095	1
4-3-2/M82	0.85433	0.487
4-3/M82	0.93742	0.72
5-3/M82	1.01982	1
6-2/M82	1.07503	1
6-3/M82	0.99372	1
7-1/M82	0.94897
7-2/M82	0.92309	0.881
9-3-2/M82	0.74176	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.08365	0.493
IL2-6/WTpooled	1.08104	0.659
IL7-5/WTpooled	1.27706
IL7-3/WTpooled	1.07495	1
IL12-4/WTpooled	1.01272	1
IL1-4/WTpooled	0.99199
WT/WTpooled	0.98882	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	0.88317

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00971	1
DC3000/delta hrp 6h	1.3242
DC3000/delta hrp 12h	1.13557	1
DC3000/delta hrp 24h	1.08267	0.467

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.93778	0.724
DC3000 delta B/DC3000 delta AB	1	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.23478	1
Exp 60h	1.33157	0.221

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97103	1
Var 0h	1.23928	0.274
Var 12h I row2-row1	1.06273	0.544
Var 12h NI row2-row1	0.8056	0.494
Var 36h I row2-row1	0.9276	0.805
Var 36h NI row2-row1	0.70476	0.645
Var 60h I row2-row1	1.60982	0.562
Var 60h NI row2-row1	1.30813	0.904
Time course 0hI-0hNI	1.16574	0.63
Time course 12hI-12hNI	1.06166	0.738
Time course 36hI-36hNI	0.85136	0.086
Time course 60hI-60hNI	0.98426	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)	1.21924	0.273
transgenic ySAMdc/azygous control (breaker)	0.78999	0.119
transgenic ySAMdc/azygous control (red)	1.1785	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00623	0.619

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.95299	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.09898	0.307
Manapal/WT (break)	0.76633	1
Manapal/WT (red)	N/A	N/A