Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.17.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.57372	0.272
27DAP/17DAP	0.98678	0.913
39DAP/27DAP	1.282	0.252
41DAP/39DAP	0.93289	0.739
42DAP/41DAP	1.21852	0.773
43DAP/42DAP	1.20213	0.848
47DAP/43DAP	1.39492	0.442
52DAP/47DAP	0.7759	0.461
57DAP/52DAP	0.92461	0.919

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26504	0.021
17DAP/reference	0.85454	0.06
27DAP/reference	1.18596	0.2
39DAP/reference	1.03755	0.786
41DAP/reference	1.14189	0.171
42DAP/reference	1.08466	0.13
43DAP/reference	0.97083	0.691
47DAP/reference	1.1913	0.042
52DAP/reference	1.30844	0.128
57DAP/reference	1.08321	0.783

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99976	0.847
27DAP/17DAP	0.95311	0.537
39DAP/27DAP	1.16225	0.403
41DAP/39DAP	1.09731	0.65
42DAP/41DAP	0.91209	0.461
43DAP/42DAP	0.85804	0.503
47DAP/43DAP	1.07984	0.765
52DAP/47DAP	0.9932	0.951
57DAP/52DAP	1.12284	0.547
57DAP/7DAP	0.94567	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82793	0.104
17DAP/reference	0.81283	0.082
27DAP/reference	0.99513	0.698
39DAP/reference	0.9263	0.23
41DAP/reference	0.89346	0.127
42DAP/reference	1.04082	0.889
43DAP/reference	0.82772	0.049
47DAP/reference	1.2599	0.514
52DAP/reference	0.89465	0.137
57DAP/reference	0.86942	0.071

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05795	0.491
17DAP/reference	0.80492	0.287
27DAP/reference	1.21658	0.704
39DAP/reference	1.25613	0.112
41DAP/reference	1.05724	0.96
42DAP/reference	1.11816	0.951
43DAP/reference	1.36297	0.054
47DAP/reference	0.98354	0.574
52DAP/reference	0.60131	0.004
57DAP/reference	0.59632

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83846	0.035
17DAP/reference	0.88871	0.214
27DAP/reference	0.81663	0.055
39DAP/reference	0.96563	0.504
41DAP/reference	0.95441	0.512
42DAP/reference	1.06674	0.433
43DAP/reference	0.93656	0.449
47DAP/reference	1.09019	0.655
52DAP/reference	1.04133	0.979
57DAP/reference	1.1952	0.933

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02429	1
26DAP/20DAP	0.99181	1
34DAP/26DAP	0.99928	1
51DAP/34DAP	1.11279	0.759
52DAP/51DAP	1.12258	0.413
53DAP/52DAP	1.37866	0.092
55DAP/53DAP	1.05595	1
57DAP/55DAP	0.98487	0.93
62DAP/57DAP	0.95136	0.994
68DAP/62DAP	1.0979	0.939
68DAP/14DAP	0.45984

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.93992	0.52

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.55409	1
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.76136

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
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	1.31637
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	1.12503

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.98636	1
IL2-6/WTpooled	1.00116	1
IL7-5/WTpooled	0.74154
IL7-3/WTpooled	0.68525	0.31
IL12-4/WTpooled	0.8858	0.581
IL1-4/WTpooled	1.00086	1
WT/WTpooled	0.99625	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	0.97974	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	1.26783
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.54457

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	2.04505

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	1.06415	1
Var 0h	0.80035	0.933
Var 12h I row2-row1	1.05406	0.654
Var 12h NI row2-row1	1.00444	1
Var 36h I row2-row1	1.44621	0.742
Var 36h NI row2-row1	0.65101	0.706
Var 60h I row2-row1	1.04447	1
Var 60h NI row2-row1	0.9319	0.977
Time course 0hI-0hNI	1.06608	0.833
Time course 12hI-12hNI	0.98563	0.935
Time course 36hI-36hNI	0.9723	0.476
Time course 60hI-60hNI	1.15142	0.025

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	0.79471	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	1.33467	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)	N/A	N/A
Manapal/WT (red)	N/A	N/A