Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.8.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92765	0.671
27DAP/17DAP	0.62737	0.138
39DAP/27DAP	1.14528	1
41DAP/39DAP	1.9968	0.603
42DAP/41DAP	2.24087	0.049
43DAP/42DAP	1.58337	0.703
47DAP/43DAP	1.75977	0.293
52DAP/47DAP	1.10903	0.777
57DAP/52DAP	1.59375	0.972

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.47313	0.023
17DAP/reference	0.52208	0.008
27DAP/reference	0.67068	0.019
39DAP/reference	0.62306	0.02
41DAP/reference	0.49004	0.008
42DAP/reference	0.76202	0.014
43DAP/reference	0.61789	0.015
47DAP/reference	0.69587	0.008
52DAP/reference	0.72277	0.099
57DAP/reference	0.75288	0.016

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.44409	0.026
27DAP/17DAP	1.03736	0.98
39DAP/27DAP	0.97134	0.833
41DAP/39DAP	1.02085	1
42DAP/41DAP	0.98797	0.816
43DAP/42DAP	0.91521	0.415
47DAP/43DAP	0.89359	0.319
52DAP/47DAP	1.0521	0.835
57DAP/52DAP	0.86436	0.434
57DAP/7DAP	0.57954	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.68397	0.08
17DAP/reference	0.6321	0.014
27DAP/reference	0.74909	0.018
39DAP/reference	0.71436	0.017
41DAP/reference	0.72728	0.067
42DAP/reference	0.79201	0.014
43DAP/reference	0.957	0.305
47DAP/reference	0.64554	0.101
52DAP/reference	0.9235	0.278
57DAP/reference	0.90098	0.093

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1522	0.66
17DAP/reference	0.77701	0.015
27DAP/reference	0.9623	0.407
39DAP/reference	0.67109	0.049
41DAP/reference	0.97453	0.441
42DAP/reference	0.6439	0.015
43DAP/reference	0.60395	0.005
47DAP/reference	0.67265	0.01
52DAP/reference	0.64483	0.006
57DAP/reference	0.60423	0.003

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.5372	0.026
17DAP/reference	0.52339	0.009
27DAP/reference	0.5777	0.026
39DAP/reference	0.77583	0.058
41DAP/reference	0.77435	0.077
42DAP/reference	1.08453	0.848
43DAP/reference	1.38586	0.482
47DAP/reference	0.36715	0.004
52DAP/reference	2.16809	0.205
57DAP/reference	0.83868	0.167

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	N/A	N/A
26DAP/20DAP	1.16108	0.415
34DAP/26DAP	1.25498	0.304
51DAP/34DAP	0.96525	0.785
52DAP/51DAP	0.87763	1
53DAP/52DAP	1.10913	0.768
55DAP/53DAP	1.04527	1
57DAP/55DAP	1.03558	0.986
62DAP/57DAP	0.77983	0.01
68DAP/62DAP	1.05004	1
68DAP/14DAP	1.00585	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.8404	0.145

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.71451	0.194
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.10777	0.439
Ripe Pepper/Ripe Tomato	1.44585	1
Mature Eggplant/Ripe Tomato	0.202	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.07625	1
1-1-2/M82	1.02204	1
12-2/M82	0.87065	0.721
12-4/M82	0.97412	1
1-3/M82	3.10572
2-1-1/M82	1.00123	1
2-1/M82	0.81603	0.345
2-6/M82	1.04943	0.505
3-2/M82	1.40904
4-1-1/M82	1.10153	1
4-1/M82	0.72629
4-3-2/M82	1.25744
4-3/M82	0.94968	1
5-3/M82	1.0496	1
6-2/M82	0.27741	0.481
6-3/M82	1.21767	1
7-1/M82	1.07371	0.598
7-2/M82	0.92673	0.599
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.77948	0.243
IL2-6/WTpooled	0.90526	1
IL7-5/WTpooled	0.46048	0.343
IL7-3/WTpooled	0.89319	0.31
IL12-4/WTpooled	0.85361	0.581
IL1-4/WTpooled	0.92933	0.699
WT/WTpooled	0.98222	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	0.50892	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99158	1
DC3000/delta hrp 6h	1.37606	1
DC3000/delta hrp 12h	0.54113	1
DC3000/delta hrp 24h	9.90977	0.023

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.36654
DC3000 delta B/DC3000 delta AB	1.13731	0.368

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.87809	0.328
Exp 36h	0.999	1
Exp 60h	1.12621	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0221	1
Var 0h	0.9611	1
Var 12h I row2-row1	1.27621	0.348
Var 12h NI row2-row1	0.8963	0.82
Var 36h I row2-row1	0.95732	1
Var 36h NI row2-row1	1.06813	1
Var 60h I row2-row1	1.24832	0.562
Var 60h NI row2-row1	0.95259	0.977
Time course 0hI-0hNI	0.90543	0.188
Time course 12hI-12hNI	0.89358	0.116
Time course 36hI-36hNI	0.8418	0.136
Time course 60hI-60hNI	0.63483	0.006

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)	1.08358	0.325
transgenic ySAMdc/azygous control (breaker)	0.74005	0.142
transgenic ySAMdc/azygous control (red)	0.89298	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06572	0.066

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.23221	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.96917	1
Manapal/WT (break)	0.89867	1
Manapal/WT (red)	0.85517	0.183