Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.20.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.3384	0.365
27DAP/17DAP	1.24419	0.767
39DAP/27DAP	1.00313	0.749
41DAP/39DAP	1.49814	0.292
42DAP/41DAP	0.92945	1
43DAP/42DAP	0.88283	0.775
47DAP/43DAP	1.0231	0.879
52DAP/47DAP	1.31854	0.528
57DAP/52DAP	0.9682	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1561	0.062
17DAP/reference	0.94954	0.474
27DAP/reference	0.8898	0.026
39DAP/reference	0.965	0.587
41DAP/reference	0.96209	0.434
42DAP/reference	0.94965	0.103
43DAP/reference	0.8849	0.024
47DAP/reference	0.90444	0.021
52DAP/reference	0.96563	0.427
57DAP/reference	1.05737	0.118

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.47842	0.105
27DAP/17DAP	0.90181	0.782
39DAP/27DAP	0.87408	0.388
41DAP/39DAP	1.29518	0.119
42DAP/41DAP	1.01517	0.936
43DAP/42DAP	0.58801	0.022
47DAP/43DAP	1.08265	0.827
52DAP/47DAP	0.86708	0.491
57DAP/52DAP	0.94548	0.622
57DAP/7DAP	0.59813	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89617	0.27
17DAP/reference	0.77426	0.011
27DAP/reference	0.75555	0.01
39DAP/reference	0.8262	0.011
41DAP/reference	0.88294	0.203
42DAP/reference	0.71228	0.011
43DAP/reference	0.85526	0.139
47DAP/reference	0.93608	0.504
52DAP/reference	0.7395	0.021
57DAP/reference	0.72593	0.025

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96528	0.607
17DAP/reference	0.88304	0.08
27DAP/reference	0.93118	0.366
39DAP/reference	0.97893	0.416
41DAP/reference	1.05749	0.587
42DAP/reference	0.96025	0.433
43DAP/reference	1.00683	0.736
47DAP/reference	1.02364	0.775
52DAP/reference	1.11462	0.279
57DAP/reference	0.93536	0.226

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83461	0.127
17DAP/reference	0.94597	0.433
27DAP/reference	0.78323	0.035
39DAP/reference	0.86391	0.076
41DAP/reference	0.92881	0.293
42DAP/reference	0.86445	0.172
43DAP/reference	0.92888	0.137
47DAP/reference	0.99509	0.667
52DAP/reference	0.78333	0.177
57DAP/reference	0.93636	0.073

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.91006	0.787
26DAP/20DAP	1.23466	0.437
34DAP/26DAP	1.09601	1
51DAP/34DAP	0.6118	0.053
52DAP/51DAP	0.86802	1
53DAP/52DAP	1.32207	0.983
55DAP/53DAP	1.31505	0.252
57DAP/55DAP	0.90422	0.638
62DAP/57DAP	1.05357	0.935
68DAP/62DAP	1.64115	0.646
68DAP/14DAP	2.121	0.022

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.03963	0.016

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.50401	0.089
Mature Green Tomato/Ripe Tomato	1.831	0.166
Immature Eggplant/Mature Eggplant	0.98968	1
Ripe Pepper/Ripe Tomato	1.2427	1
Mature Eggplant/Ripe Tomato	2.49525	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.14764	0.742
1-1-2/M82	0.94378	1
12-2/M82	1.16179
12-4/M82	0.93407	1
1-3/M82	0.73701	0.376
2-1-1/M82	0.789
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.90234	0.414
4-1-1/M82	0.96782	1
4-1/M82	1.28919	1
4-3-2/M82	0.82148	1
4-3/M82	1.01398	1
5-3/M82	0.93787	1
6-2/M82	0.78058
6-3/M82	0.94833	1
7-1/M82	1.30884
7-2/M82	1.01672	1
9-3-2/M82	0.68081	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.88706	1
IL2-6/WTpooled	0.60201	0.348
IL7-5/WTpooled	1.16769	0.792
IL7-3/WTpooled	0.61473	0.418
IL12-4/WTpooled	1.13359	0.646
IL1-4/WTpooled	0.94511	0.834
WT/WTpooled	0.98213	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	1.34464	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07881
DC3000/delta hrp 6h	0.96674	0.95
DC3000/delta hrp 12h	0.99378	1
DC3000/delta hrp 24h	1.18363	0.308

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.30538	0.032
DC3000 delta B/DC3000 delta AB	1.2932	0.368

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.75698	1
Exp 36h	1.11189	1
Exp 60h	1.01606	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96214	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.10812	0.58
Var 12h NI row2-row1	1.06211	1
Var 36h I row2-row1	0.84058	0.805
Var 36h NI row2-row1	1.38166	1
Var 60h I row2-row1	1.02723	0.502
Var 60h NI row2-row1	1.01998	1
Time course 0hI-0hNI	0.92299	0.446
Time course 12hI-12hNI	0.93216	0.476
Time course 36hI-36hNI	0.68092	0.023
Time course 60hI-60hNI	0.6215	0.009

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)	0.95178	0.485
transgenic ySAMdc/azygous control (breaker)	0.76151	0.131
transgenic ySAMdc/azygous control (red)	1.02104	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94297	0.093

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.00249	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.15391	0.096
Manapal/WT (break)	1.39177	1
Manapal/WT (red)	1.15519	1