Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.13.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0767	0.938
27DAP/17DAP	1.07985	1
39DAP/27DAP	1.00894	0.857
41DAP/39DAP	1.32648	0.516
42DAP/41DAP	1.2049	0.937
43DAP/42DAP	0.89037	0.822
47DAP/43DAP	0.81154	0.429
52DAP/47DAP	2.20188	0.147
57DAP/52DAP	0.68958	0.591

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97655	0.562
17DAP/reference	1.03643	0.083
27DAP/reference	0.99077	0.741
39DAP/reference	1.04309	0.534
41DAP/reference	0.96111	0.154
42DAP/reference	0.90252	0.009
43DAP/reference	1.07932	0.044
47DAP/reference	0.90672	0.011
52DAP/reference	0.89751	0.084
57DAP/reference	0.84716	0.047

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92663	0.47
27DAP/17DAP	1.04977	0.909
39DAP/27DAP	1.10886	0.534
41DAP/39DAP	1.00429	1
42DAP/41DAP	0.97989	0.784
43DAP/42DAP	1.06162	0.446
47DAP/43DAP	1.0622	0.758
52DAP/47DAP	1.00014	0.97
57DAP/52DAP	0.89445	0.382
57DAP/7DAP	1.2037	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78351	0.078
17DAP/reference	0.75302	0.013
27DAP/reference	0.81156	0.014
39DAP/reference	0.78474	0.023
41DAP/reference	0.80556	0.025
42DAP/reference	0.77557	0.013
43DAP/reference	0.6658	0.012
47DAP/reference	0.79202	0.079
52DAP/reference	0.63183	0.012
57DAP/reference	0.70358	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0817	0.206
17DAP/reference	1.02713	0.739
27DAP/reference	0.92769	0.24
39DAP/reference	0.86465	0.087
41DAP/reference	0.87654	0.083
42DAP/reference	0.91115	0.067
43DAP/reference	1.16035	0.114
47DAP/reference	0.94101	0.12
52DAP/reference	0.95	0.171
57DAP/reference	1.10353	0.374

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79871	0.077
17DAP/reference	0.93257	0.407
27DAP/reference	0.72839	0.043
39DAP/reference	0.7679	0.022
41DAP/reference	1.1674	1
42DAP/reference	0.81566	0.041
43DAP/reference	0.80295	0.042
47DAP/reference	0.9958	0.626
52DAP/reference	0.71632	0.167
57DAP/reference	0.65425	0.019

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94583	0.997
26DAP/20DAP	0.81396	0.512
34DAP/26DAP	0.93582	0.811
51DAP/34DAP	0.932	0.546
52DAP/51DAP	1.0699	0.733
53DAP/52DAP	1.02698	0.901
55DAP/53DAP	1.08724	0.434
57DAP/55DAP	0.84352	0.133
62DAP/57DAP	1.13285	0.257
68DAP/62DAP	0.81231	0.082
68DAP/14DAP	0.81494	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.87849	0.198

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.91106	0.323
Mature Green Tomato/Ripe Tomato	1.15631	0.363
Immature Eggplant/Mature Eggplant	1.67667	0.055
Ripe Pepper/Ripe Tomato	0.77357	0.293
Mature Eggplant/Ripe Tomato	0.95823	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.1284	0.877
1-1-2/M82	0.95088
12-2/M82	1.14037	0.448
12-4/M82	1.12982	1
1-3/M82	0.91412	0.441
2-1-1/M82	1.06442
2-1/M82	N/A	N/A
2-6/M82	1.04147	1
3-2/M82	1.02467	1
4-1-1/M82	1.15646	1
4-1/M82	0.83713	1
4-3-2/M82	1.02411
4-3/M82	0.80491	0.72
5-3/M82	1.03066	1
6-2/M82	0.94112	1
6-3/M82	0.9621
7-1/M82	0.89117
7-2/M82	1.17818
9-3-2/M82	0.9102	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.04933
IL2-6/WTpooled	0.81266	0.473
IL7-5/WTpooled	0.46811
IL7-3/WTpooled	1.07551	1
IL12-4/WTpooled	0.94285	0.71
IL1-4/WTpooled	1.1592	1
WT/WTpooled	1.01332	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	1.05624	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97121	1
DC3000/delta hrp 6h	0.91769	0.95
DC3000/delta hrp 12h	1.26363	1
DC3000/delta hrp 24h	0.99481	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.01897	1
DC3000 delta B/DC3000 delta AB	1.11764	0.349

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.20762	1
Exp 36h	0.96907	0.943
Exp 60h	1.05055	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0176	1
Var 0h	1.08613	0.936
Var 12h I row2-row1	1.05185	0.654
Var 12h NI row2-row1	0.87337	0.713
Var 36h I row2-row1	0.93301	0.805
Var 36h NI row2-row1	0.75452	0.522
Var 60h I row2-row1	1.16891	0.543
Var 60h NI row2-row1	1.17389	0.904
Time course 0hI-0hNI	1.16943	0.719
Time course 12hI-12hNI	0.99853	1
Time course 36hI-36hNI	1.02328	0.799
Time course 60hI-60hNI	1.42984	0.008

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)	0.93793	0.454
transgenic ySAMdc/azygous control (breaker)	1.00004	1
transgenic ySAMdc/azygous control (red)	0.98041	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01642	0.287

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.86922	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.24168	0.105
Manapal/WT (break)	0.74961	1
Manapal/WT (red)	0.82689	0.181