Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.2.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.26682	0.838
27DAP/17DAP	0.99417	0.975
39DAP/27DAP	1.19063	0.995
41DAP/39DAP	0.89229	0.563
42DAP/41DAP	0.91953	1
43DAP/42DAP	1.02645	1
47DAP/43DAP	1.37653	0.497
52DAP/47DAP	1.14395	0.763
57DAP/52DAP	1.20967	0.941

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92571	0.262
17DAP/reference	0.96718	0.503
27DAP/reference	1.02479	0.82
39DAP/reference	0.95448	0.284
41DAP/reference	0.96037	0.434
42DAP/reference	0.98346	0.398
43DAP/reference	1.18561	0.01
47DAP/reference	1.21345	0.006
52DAP/reference	1.14991	0.176
57DAP/reference	1.1955	0.052

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.36342	0.051
27DAP/17DAP	0.94557	0.169
39DAP/27DAP	0.78005	0.036
41DAP/39DAP	1.21981	0.817
42DAP/41DAP	1.12491	0.401
43DAP/42DAP	0.97431	0.558
47DAP/43DAP	0.9525	0.687
52DAP/47DAP	0.98052	0.917
57DAP/52DAP	0.91285	0.48
57DAP/7DAP	0.99096	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19993	0.305
17DAP/reference	1.2457	0.023
27DAP/reference	1.36097	0.246
39DAP/reference	1.2189	0.086
41DAP/reference	1.23448	0.042
42DAP/reference	1.12614	0.308
43DAP/reference	1.0102	0.802
47DAP/reference	1.22578	0.161
52DAP/reference	1.33603	0.012
57DAP/reference	1.43022	0.027

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88369	0.19
17DAP/reference	1.12352	0.294
27DAP/reference	1.14167	0.086
39DAP/reference	0.9621	0.37
41DAP/reference	1.23457	0.05
42DAP/reference	0.9945	0.594
43DAP/reference	0.83068	0.114
47DAP/reference	1.11649	0.098
52DAP/reference	0.91384	0.101
57DAP/reference	0.84977	0.092

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04288	1
17DAP/reference	1.00029	0.839
27DAP/reference	1.08808	0.207
39DAP/reference	0.97024	0.544
41DAP/reference	1.06224	0.939
42DAP/reference	1.10462	0.49
43DAP/reference	1.05088	0.815
47DAP/reference	1.21769	0.127
52DAP/reference	1.11534	0.674
57DAP/reference	1.64408	0.008

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06431	0.966
26DAP/20DAP	1.25338	0.39
34DAP/26DAP	1.15023	1
51DAP/34DAP	1.30972	0.042
52DAP/51DAP	0.89511	1
53DAP/52DAP	1.18979	0.428
55DAP/53DAP	1.05791	0.876
57DAP/55DAP	0.97205	0.845
62DAP/57DAP	1.21964	0.569
68DAP/62DAP	1.78259	0.097
68DAP/14DAP	2.5184	0.027

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.59958	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.7488	0.26
Mature Green Tomato/Ripe Tomato	0.98499	0.774
Immature Eggplant/Mature Eggplant	0.9193	0.292
Ripe Pepper/Ripe Tomato	0.52919	0.293
Mature Eggplant/Ripe Tomato	1.15923	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.44588	0.742
1-1-2/M82	1.22568	1
12-2/M82	0.92889	0.692
12-4/M82	1.19157	1
1-3/M82	2.01656	0.479
2-1-1/M82	1.06011	1
2-1/M82	0.91072	0.345
2-6/M82	0.98789	1
3-2/M82	1.28696	0.549
4-1-1/M82	1.15332	1
4-1/M82	1.58539
4-3-2/M82	1.33079	0.508
4-3/M82	1.21473	0.268
5-3/M82	0.7412	0.642
6-2/M82	1.54244	0.253
6-3/M82	1.05195	1
7-1/M82	1.29767	0.741
7-2/M82	1.05431	1
9-3-2/M82	1.26557	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.75548	0.247
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.5507
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.71756	0.581
IL1-4/WTpooled	0.8421	0.562
WT/WTpooled	0.42257

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	1.01524	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03761	0.921
DC3000/delta hrp 6h	1.09492	1
DC3000/delta hrp 12h	0.97414	1
DC3000/delta hrp 24h	1.07305	0.553

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.67246	0.27
DC3000 delta B/DC3000 delta AB	1.0782	0.479

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.05848	1
Exp 36h	1.20567	0.693
Exp 60h	1.14823	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98014	1
Var 0h	0.46124	0.933
Var 12h I row2-row1	0.93916	0.856
Var 12h NI row2-row1	0.96629	0.82
Var 36h I row2-row1	1.44772	0.742
Var 36h NI row2-row1	1.11467	1
Var 60h I row2-row1	0.87578	0.832
Var 60h NI row2-row1	0.8607	0.38
Time course 0hI-0hNI	1.02068	0.852
Time course 12hI-12hNI	0.99563	1
Time course 36hI-36hNI	1.00462	0.908
Time course 60hI-60hNI	1.08332	0.254

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)	0.82904	0.246
transgenic ySAMdc/azygous control (breaker)	0.75226	0.173
transgenic ySAMdc/azygous control (red)	0.98168	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01175	0.909

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.74767	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.86963	1
Manapal/WT (break)	0.923	1
Manapal/WT (red)	1.03412	1