Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-2.4.6.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89322	0.511
27DAP/17DAP	0.82629	0.615
39DAP/27DAP	1.2942	0.425
41DAP/39DAP	0.66536	0.068
42DAP/41DAP	1.24298	0.873
43DAP/42DAP	1.54914	0.259
47DAP/43DAP	1.22835	0.647
52DAP/47DAP	0.56021	0.048
57DAP/52DAP	1.21548	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07142	1
17DAP/reference	0.78589	0.074
27DAP/reference	1.85181	0.043
39DAP/reference	1.347	0.047
41DAP/reference	1.05836	0.91
42DAP/reference	1.81316	0.001
43DAP/reference	1.44748	0.009
47DAP/reference	2.32401	0.001
52DAP/reference	1.45939	0.011
57DAP/reference	1.73709	0.009

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.19824	0.258
27DAP/17DAP	1.21317	0.413
39DAP/27DAP	1.71429	0.587
41DAP/39DAP	1.09756	1
42DAP/41DAP	0.94196	0.583
43DAP/42DAP	0.7795	0.043
47DAP/43DAP	0.98853	0.93
52DAP/47DAP	1.4518	0.197
57DAP/52DAP	1.12916	0.674
57DAP/7DAP	1.12719	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26281	0.07
17DAP/reference	1.20992	0.03
27DAP/reference	1.01983	1
39DAP/reference	0.94523	0.17
41DAP/reference	0.77806	0.038
42DAP/reference	0.76458	0.03
43DAP/reference	0.90972	0.22
47DAP/reference	1.59811	0.024
52DAP/reference	0.83061	0.097
57DAP/reference	1.07355	0.612

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90782	0.386
17DAP/reference	0.84526	0.058
27DAP/reference	0.77557	0.111
39DAP/reference	0.62275	0.011
41DAP/reference	0.7003	0.011
42DAP/reference	0.93269	0.237
43DAP/reference	0.70163	0.028
47DAP/reference	1.22897	0.067
52DAP/reference	0.5506	0.004
57DAP/reference	0.50781	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89937	0.23
17DAP/reference	0.73299	0.112
27DAP/reference	0.63514	0.024
39DAP/reference	0.79129	0.019
41DAP/reference	0.70171	0.018
42DAP/reference	1.08029	0.802
43DAP/reference	0.87861	0.116
47DAP/reference	1.02078	0.708
52DAP/reference	2.52092	0.059
57DAP/reference	1.79971	0.008

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.19765	0.966
26DAP/20DAP	1.73908	0.172
34DAP/26DAP	0.73708	0.131
51DAP/34DAP	1.29088	0.192
52DAP/51DAP	0.73662	0.151
53DAP/52DAP	0.53613	0.049
55DAP/53DAP	0.38219	0.016
57DAP/55DAP	1.32042	0.448
62DAP/57DAP	2.22297	0.011
68DAP/62DAP	1.12627	0.8
68DAP/14DAP	0.92029	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.70867	0.092

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.11109	0.176
Mature Green Tomato/Ripe Tomato	1.68807	0.064
Immature Eggplant/Mature Eggplant	0.93636	0.176
Ripe Pepper/Ripe Tomato	1.2415	1
Mature Eggplant/Ripe Tomato	1.65815	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.20549	0.591
1-1-2/M82	1.48363	1
12-2/M82	1.0375	1
12-4/M82	1.49816	1
1-3/M82	2.10589	0.479
2-1-1/M82	1.0101	1
2-1/M82	1.06796	1
2-6/M82	1.13658	0.594
3-2/M82	0.82313	0.455
4-1-1/M82	1.04547	1
4-1/M82	0.35994	N/A
4-3-2/M82	1.23634	0.508
4-3/M82	1.30715	1
5-3/M82	0.96755	1
6-2/M82	0.78435	0.497
6-3/M82	1.23006	1
7-1/M82	0.86356	0.509
7-2/M82	1.50081	0.385
9-3-2/M82	1.0973	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.9707	1
IL2-6/WTpooled	1.11514	0.788
IL7-5/WTpooled	0.94742	1
IL7-3/WTpooled	1.10832	1
IL12-4/WTpooled	0.8102	0.581
IL1-4/WTpooled	0.9627	1
WT/WTpooled	0.88588	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	0.75016	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97708	1
DC3000/delta hrp 6h	0.99414	0.95
DC3000/delta hrp 12h	0.96297	1
DC3000/delta hrp 24h	0.8236	0.194

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	1.23599	0.215

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01319	1
Exp 36h	1.05054	1
Exp 60h	1.24037	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02518	1
Var 0h	1.14007	0.305
Var 12h I row2-row1	1.00127	1
Var 12h NI row2-row1	1.12406	1
Var 36h I row2-row1	1.1972	0.908
Var 36h NI row2-row1	1.15706	1
Var 60h I row2-row1	0.81389	0.306
Var 60h NI row2-row1	1.05605	0.904
Time course 0hI-0hNI	1.05059	0.719
Time course 12hI-12hNI	0.90857	0.377
Time course 36hI-36hNI	0.80531	0.023
Time course 60hI-60hNI	1.57182	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)	1.10206	0.431
transgenic ySAMdc/azygous control (breaker)	0.93221	0.49
transgenic ySAMdc/azygous control (red)	1.07656	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	2.13673	0.035

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.77757	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.93826	1
Manapal/WT (break)	1.04248	1
Manapal/WT (red)	0.87773	0.187