Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.17.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.75806	0.068
27DAP/17DAP	0.80458	0.5
39DAP/27DAP	1.30398	0.655
41DAP/39DAP	0.6645	0.06
42DAP/41DAP	0.89045	1
43DAP/42DAP	1.36457	0.712
47DAP/43DAP	0.64639	0.115
52DAP/47DAP	1.18807	0.702
57DAP/52DAP	0.94424	0.919

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0995	0.638
17DAP/reference	1.14403	0.086
27DAP/reference	1.0758	0.478
39DAP/reference	1.17449	0.27
41DAP/reference	1.14719	0.287
42DAP/reference	1.38429	0.002
43DAP/reference	0.90355	0.123
47DAP/reference	1.26089	0.032
52DAP/reference	1.1967	0.476
57DAP/reference	1.36835	0.068

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94601	0.496
27DAP/17DAP	0.98462	0.919
39DAP/27DAP	0.85354	0.167
41DAP/39DAP	1.25954	0.896
42DAP/41DAP	0.94641	0.607
43DAP/42DAP	0.88948	0.038
47DAP/43DAP	0.95666	0.781
52DAP/47DAP	0.54132	0.034
57DAP/52DAP	0.7655	0.264
57DAP/7DAP	0.37419	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.4926	0.093
17DAP/reference	1.039	1
27DAP/reference	0.98028	0.494
39DAP/reference	1.03149	0.552
41DAP/reference	1.02754	0.646
42DAP/reference	1.00235	0.612
43DAP/reference	0.99518	0.665
47DAP/reference	1.14567	0.618
52DAP/reference	0.83857	0.097
57DAP/reference	0.97265	0.458

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04674	0.965
17DAP/reference	1.0473	1
27DAP/reference	1.01924	0.686
39DAP/reference	0.97937	0.497
41DAP/reference	1.1158	0.657
42DAP/reference	1.40409	0.017
43DAP/reference	1.11792	0.624
47DAP/reference	1.16988	0.105
52DAP/reference	1.05408	0.882
57DAP/reference	0.97484	0.61

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99287	0.699
17DAP/reference	0.9855	0.696
27DAP/reference	1.03719	0.903
39DAP/reference	1.19671	0.078
41DAP/reference	1.28939	0.047
42DAP/reference	1.28913	0.134
43DAP/reference	1.08894	0.565
47DAP/reference	1.13669	0.792
52DAP/reference	1.90716	0.201
57DAP/reference	1.2649	0.138

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.6204	0.52
26DAP/20DAP	2.53405	0.099
34DAP/26DAP	0.6802	0.148
51DAP/34DAP	1.03472	0.795
52DAP/51DAP	0.96167	1
53DAP/52DAP	0.94213	0.776
55DAP/53DAP	1.00599	0.908
57DAP/55DAP	0.98206	0.888
62DAP/57DAP	1.29734	0.158
68DAP/62DAP	0.75681	0.126
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	4.69102	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.88286	0.018
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.06648
Mature Eggplant/Ripe Tomato	0.14202	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.12087	0.877
1-1-2/M82	1.30778	1
12-2/M82	1.01624	1
12-4/M82	1.15677	1
1-3/M82	1.48833	0.479
2-1-1/M82	1.03226	0.764
2-1/M82	1.03102	1
2-6/M82	1.46615
3-2/M82	1.1535
4-1-1/M82	1.64567	1
4-1/M82	1.71597	0.853
4-3-2/M82	1.18632	0.508
4-3/M82	1.18205	1
5-3/M82	1.05111	1
6-2/M82	1.19847	1
6-3/M82	0.79399	0.715
7-1/M82	1.09107	0.741
7-2/M82	1.05902	1
9-3-2/M82	1.40764	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.68185
IL2-6/WTpooled	1.4754	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.42358
IL12-4/WTpooled	1.2883	0.553
IL1-4/WTpooled	0.95638	1
WT/WTpooled	1.13311	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	1.10491	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98055	1
DC3000/delta hrp 6h	0.63363
DC3000/delta hrp 12h	0.8927
DC3000/delta hrp 24h	1.1355	0.243

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.24742	0.042
DC3000 delta B/DC3000 delta AB	1.45048	0.095

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

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

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01346	1
Var 0h	1.05073	1
Var 12h I row2-row1	0.96931	0.948
Var 12h NI row2-row1	1.07178	1
Var 36h I row2-row1	1.12743	1
Var 36h NI row2-row1	0.92652	0.706
Var 60h I row2-row1	0.84142	0.285
Var 60h NI row2-row1	0.84215	0.483
Time course 0hI-0hNI	1.15009	0.603
Time course 12hI-12hNI	1.06644	0.603
Time course 36hI-36hNI	1.43062	0.006
Time course 60hI-60hNI	2.88014	0.008

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)	1.11138	0.862
transgenic ySAMdc/azygous control (breaker)	0.62367	0.251
transgenic ySAMdc/azygous control (red)	0.93017	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.19512	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.31828	1
Manapal/WT (red)	1.31169	0.222