Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.19.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97597	0.801
27DAP/17DAP	1.2809	0.849
39DAP/27DAP	0.78607	0.382
41DAP/39DAP	1.2525	0.549
42DAP/41DAP	1.04421	0.994
43DAP/42DAP	0.96702	0.91
47DAP/43DAP	1.09875	0.909
52DAP/47DAP	1.02107	0.908
57DAP/52DAP	0.90423	0.777

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21145	0.197
17DAP/reference	0.94969	0.63
27DAP/reference	1.18409	0.041
39DAP/reference	1.07739	0.453
41DAP/reference	1.17364	0.02
42DAP/reference	1.2573	0.08
43DAP/reference	2.05441
47DAP/reference	1.65618	0.002
52DAP/reference	0.91457	0.35
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00978	1
27DAP/17DAP	1.01134	1
39DAP/27DAP	0.97782	0.881
41DAP/39DAP	0.9812	0.98
42DAP/41DAP	1.00364	0.924
43DAP/42DAP	1.08158	0.112
47DAP/43DAP	0.97025	0.815
52DAP/47DAP	1.13408	0.524
57DAP/52DAP	1.21893	0.15
57DAP/7DAP	0.94065	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98588	0.613
17DAP/reference	0.95583	0.167
27DAP/reference	0.88459	0.012
39DAP/reference	1.0488	0.09
41DAP/reference	0.9662	0.184
42DAP/reference	0.97962	0.506
43DAP/reference	1.05693	0.241
47DAP/reference	1.08241	0.514
52DAP/reference	1.05156	0.375
57DAP/reference	1.0529	0.125

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23381	0.343
17DAP/reference	1.25783	0.033
27DAP/reference	1.20326	0.066
39DAP/reference	1.2657	0.043
41DAP/reference	1.33217	0.022
42DAP/reference	1.15911	0.302
43DAP/reference	1.09552	0.624
47DAP/reference	1.07491	0.218
52DAP/reference	1.1781	0.061
57DAP/reference	1.33484	0.017

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0182	0.827
17DAP/reference	1.04374	0.412
27DAP/reference	1.04232	0.425
39DAP/reference	1.00609	1
41DAP/reference	0.99765	0.754
42DAP/reference	1.12428	0.321
43DAP/reference	1.30329	0.062
47DAP/reference	1.35692	0.007
52DAP/reference	1.15401	0.566
57DAP/reference	1.17488	0.291

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.15489	0.47
26DAP/20DAP	0.89898	0.512
34DAP/26DAP	1.12955	1
51DAP/34DAP	0.85038	0.264
52DAP/51DAP	1.43042	0.054
53DAP/52DAP	0.95997	0.811
55DAP/53DAP	1.15888	0.341
57DAP/55DAP	0.75935	0.144
62DAP/57DAP	0.66512	0.088
68DAP/62DAP	0.88633	0.609
68DAP/14DAP	0.77576	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.68059	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.90016	0.418
Mature Green Tomato/Ripe Tomato	1.35678	0.021
Immature Eggplant/Mature Eggplant	1.65817	0.05
Ripe Pepper/Ripe Tomato	0.81065	1
Mature Eggplant/Ripe Tomato	0.62839	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.09381	0.742
1-1-2/M82	0.87692	0.804
12-2/M82	1.08638	1
12-4/M82	1.03348	1
1-3/M82	1.04687	1
2-1-1/M82	0.98438	1
2-1/M82	1.09883	0.345
2-6/M82	0.925	1
3-2/M82	1.00699	1
4-1-1/M82	1.0423	1
4-1/M82	0.94978	1
4-3-2/M82	1.05299	0.508
4-3/M82	1.04874	1
5-3/M82	1.03364	1
6-2/M82	1.03138	1
6-3/M82	1.007	1
7-1/M82	0.96381	0.803
7-2/M82	1.00257	1
9-3-2/M82	1.10563	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.16436	0.365
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.59437	0.67
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.07558	1
WT/WTpooled	N/A	N/A

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	0.85131	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92747	1
DC3000/delta hrp 6h	0.92185	0.95
DC3000/delta hrp 12h	1.00634	1
DC3000/delta hrp 24h	0.98725	0.978

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.75915	0.046
DC3000 delta B/DC3000 delta AB	0.81791	0.034

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00384	1
Exp 36h	1.17289	0.693
Exp 60h	1.28773	0.22

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0015	1
Var 0h	0.95588	1
Var 12h I row2-row1	0.8178	0.357
Var 12h NI row2-row1	0.90308	0.713
Var 36h I row2-row1	1.04231	1
Var 36h NI row2-row1	1.16106	0.482
Var 60h I row2-row1	1.04425	1
Var 60h NI row2-row1	1.00097	1
Time course 0hI-0hNI	1.00226	1
Time course 12hI-12hNI	0.91986	0.287
Time course 36hI-36hNI	0.88497	0.084
Time course 60hI-60hNI	0.28159	0.005

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)	1.03076	0.511
transgenic ySAMdc/azygous control (breaker)	0.83463	0.49
transgenic ySAMdc/azygous control (red)	1.11048	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.08657	0.11

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.8538	0.238

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)	N/A	N/A
Manapal/WT (red)	0.71828	0.242