Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.6.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15513	0.575
27DAP/17DAP	0.90649	0.836
39DAP/27DAP	0.9632	0.719
41DAP/39DAP	1.23778	0.426
42DAP/41DAP	0.96951	1
43DAP/42DAP	0.94659	0.874
47DAP/43DAP	0.82465	0.462
52DAP/47DAP	1.08327	0.965
57DAP/52DAP	1.10197	0.95

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09255	0.278
17DAP/reference	0.9556	0.536
27DAP/reference	1.01364	0.904
39DAP/reference	0.98443	0.797
41DAP/reference	0.86948	0.154
42DAP/reference	1.10389	0.241
43DAP/reference	1.02038	0.982
47DAP/reference	1.02598	1
52DAP/reference	0.9761	0.489
57DAP/reference	0.90388	0.248

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.77526	0.077
27DAP/17DAP	0.79898	0.1
39DAP/27DAP	1.67387	0.067
41DAP/39DAP	1.18511	1
42DAP/41DAP	1.22302	0.12
43DAP/42DAP	2.06971	0.015
47DAP/43DAP	0.82556	0.018
52DAP/47DAP	0.799	0.078
57DAP/52DAP	1.03193	0.941
57DAP/7DAP	1.01423	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7198	0.039
17DAP/reference	0.87962	0.144
27DAP/reference	0.86376	0.048
39DAP/reference	0.78987	0.012
41DAP/reference	0.76118	0.021
42DAP/reference	0.80583	0.06
43DAP/reference	0.774	0.016
47DAP/reference	0.96181	0.671
52DAP/reference	1.15395	0.74
57DAP/reference	0.75184	0.022

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09246	0.758
17DAP/reference	1.04039	0.786
27DAP/reference	0.89382	0.257
39DAP/reference	0.86772	0.257
41DAP/reference	1.23202	0.241
42DAP/reference	0.86466	0.189
43DAP/reference	1.27962	0.331
47DAP/reference	0.92532	0.214
52DAP/reference	0.77187	0.008
57DAP/reference	1.10706	0.737

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75012	0.023
17DAP/reference	0.85811	0.255
27DAP/reference	0.85411	0.058
39DAP/reference	0.85059	0.163
41DAP/reference	0.9778	0.618
42DAP/reference	0.84274	0.108
43DAP/reference	0.83198	0.035
47DAP/reference	1.34709	0.029
52DAP/reference	0.94801	0.529
57DAP/reference	1.00769	0.79

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.29099	0.966
26DAP/20DAP	1.15957	0.574
34DAP/26DAP	0.83681	0.575
51DAP/34DAP	1.36094	0.303
52DAP/51DAP	1.00188	1
53DAP/52DAP	0.95119	0.797
55DAP/53DAP	0.99773	0.908
57DAP/55DAP	1.02779	0.819
62DAP/57DAP	1.32336	1
68DAP/62DAP	1.27051	0.068
68DAP/14DAP	0.69448	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.31222	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.31454	0.363
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.25153	1
Mature Eggplant/Ripe Tomato	1.02	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.11584	0.591
1-1-2/M82	1.00644	1
12-2/M82	N/A	N/A
12-4/M82	1.06251	1
1-3/M82	0.9915
2-1-1/M82	0.91919
2-1/M82	N/A	N/A
2-6/M82	0.86451	1
3-2/M82	0.89153
4-1-1/M82	0.90712	1
4-1/M82	1.49462	0.372
4-3-2/M82	1.04044	0.508
4-3/M82	1.21397	1
5-3/M82	1.03324	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.00267
7-2/M82	0.95517	0.881
9-3-2/M82	0.98682	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.79662
IL2-6/WTpooled	1.16709	0.584
IL7-5/WTpooled	1.43174
IL7-3/WTpooled	1.06667	1
IL12-4/WTpooled	1.11218	0.737
IL1-4/WTpooled	1.09938	1
WT/WTpooled	0.96639	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	0.95941	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98281	1
DC3000/delta hrp 6h	1.0061	0.95
DC3000/delta hrp 12h	1.11334	1
DC3000/delta hrp 24h	0.90117	0.231

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.08627
DC3000 delta B/DC3000 delta AB	1.19439	0.349

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.45431	1
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	1.00736	1
Var 0h	0.60099	0.933
Var 12h I row2-row1	1.02635	0.613
Var 12h NI row2-row1	0.96138	0.627
Var 36h I row2-row1	0.97007	1
Var 36h NI row2-row1	1.24406	0.482
Var 60h I row2-row1	1.22086	0.562
Var 60h NI row2-row1	1.0664	0.904
Time course 0hI-0hNI	0.97323	0.879
Time course 12hI-12hNI	0.97546	0.776
Time course 36hI-36hNI	0.96628	0.468
Time course 60hI-60hNI	0.66066	0.015

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)	0.9874	0.567
transgenic ySAMdc/azygous control (breaker)	1.09546	1
transgenic ySAMdc/azygous control (red)	1.01628	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.09461	0.125

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.83924	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.02121	0.307
Manapal/WT (break)	0.96603	1
Manapal/WT (red)	1.40013	0.222