Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.4.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99662	0.839
27DAP/17DAP	1.15543	0.92
39DAP/27DAP	1.41896	0.395
41DAP/39DAP	1.04307	0.921
42DAP/41DAP	1.09655	0.938
43DAP/42DAP	0.93331	0.815
47DAP/43DAP	1.38714	0.42
52DAP/47DAP	1.53886	0.541
57DAP/52DAP	1.09432	0.993

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95614	0.476
17DAP/reference	1.1494	0.258
27DAP/reference	1.09651	0.637
39DAP/reference	1.11891	0.318
41DAP/reference	1.11997	0.393
42DAP/reference	1.02561	0.782
43DAP/reference	1.03172	0.812
47DAP/reference	1.09197	0.646
52DAP/reference	1.17614	0.158
57DAP/reference	0.98633	0.61

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87984	0.26
27DAP/17DAP	1.02949	0.945
39DAP/27DAP	1.20184	0.127
41DAP/39DAP	0.96179	0.968
42DAP/41DAP	1.04534	0.886
43DAP/42DAP	0.99696	1
47DAP/43DAP	1.04695	0.822
52DAP/47DAP	1.03357	0.9
57DAP/52DAP	1.03698	0.992
57DAP/7DAP	0.89189	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96566	0.55
17DAP/reference	1.0143	1
27DAP/reference	0.9744	0.462
39DAP/reference	1.03219	0.705
41DAP/reference	0.99146	0.619
42DAP/reference	1.18098	0.233
43DAP/reference	0.98927	0.58
47DAP/reference	0.95746	0.504
52DAP/reference	1.00871	0.802
57DAP/reference	1.09312	0.356

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30492	0.343
17DAP/reference	0.88105	0.021
27DAP/reference	1.02293	1
39DAP/reference	1.00805	1
41DAP/reference	0.98395	0.422
42DAP/reference	0.88588	0.212
43DAP/reference	1.00799	0.692
47DAP/reference	1.05448	0.621
52DAP/reference	1.08424	0.702
57DAP/reference	1.08497	0.269

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08898	0.659
17DAP/reference	0.99811	0.825
27DAP/reference	0.83481	0.036
39DAP/reference	0.96905	0.504
41DAP/reference	1.00906	0.826
42DAP/reference	1.03759	0.893
43DAP/reference	1.15013	0.349
47DAP/reference	0.94777	0.421
52DAP/reference	0.96033	0.637
57DAP/reference	1.17141	0.362

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09778	0.966
26DAP/20DAP	0.96314	1
34DAP/26DAP	1.0382	1
51DAP/34DAP	1.08068	0.483
52DAP/51DAP	0.89848	1
53DAP/52DAP	0.88834	0.417
55DAP/53DAP	1.02217	1
57DAP/55DAP	1.11114	0.865
62DAP/57DAP	N/A	N/A
68DAP/62DAP	0.86412	0.609
68DAP/14DAP	0.77281	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.80758	0.033

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.57097
Mature Green Tomato/Ripe Tomato	0.71156	0.072
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	2.95353
Mature Eggplant/Ripe Tomato	1.04776	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.86563
12-2/M82	N/A	N/A
12-4/M82	0.94014	1
1-3/M82	N/A	N/A
2-1-1/M82	0.87941
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.12679	0.378
6-2/M82	N/A	N/A
6-3/M82	1.12728
7-1/M82	1.4793
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.81435	0.243
IL2-6/WTpooled	1.04885	1
IL7-5/WTpooled	1.07343	1
IL7-3/WTpooled	0.92029	1
IL12-4/WTpooled	1.01608	1
IL1-4/WTpooled	0.86973	0.444
WT/WTpooled	1.11115	0.957

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	0.97948	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.21491	0.921
DC3000/delta hrp 6h	0.92991	0.95
DC3000/delta hrp 12h	0.97536	1
DC3000/delta hrp 24h	1.11021	0.604

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	0.80462	0.337

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.0101	1
Exp 36h	0.98831	1
Exp 60h	0.96314	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	0.93681
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	0.92478	0.3
transgenic ySAMdc/azygous control (breaker)	1.31523	0.178
transgenic ySAMdc/azygous control (red)	1.02665	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02979	0.234

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.03918	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.03701	1
Manapal/WT (break)	1.12866	1
Manapal/WT (red)	1.05199	1