Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.20.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02109	1
27DAP/17DAP	1.02239	1
39DAP/27DAP	1.04379	0.876
41DAP/39DAP	1.17494	0.56
42DAP/41DAP	1.17606	0.802
43DAP/42DAP	0.86024	0.77
47DAP/43DAP	1.13451	0.943
52DAP/47DAP	0.85457	0.595
57DAP/52DAP	0.95916	0.956

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87229	0.042
17DAP/reference	0.93628	0.321
27DAP/reference	0.91179	0.141
39DAP/reference	0.94408	0.455
41DAP/reference	0.94244	0.542
42DAP/reference	0.87962	0.069
43DAP/reference	0.89995	0.377
47DAP/reference	1.11135	0.666
52DAP/reference	0.69256	0.028
57DAP/reference	0.90273	0.248

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08982	0.525
27DAP/17DAP	0.98136	0.919
39DAP/27DAP	1.38927	0.227
41DAP/39DAP	0.78316	0.121
42DAP/41DAP	1.06618	0.687
43DAP/42DAP	1.36145	0.027
47DAP/43DAP	1.13017	0.376
52DAP/47DAP	0.93764	0.6
57DAP/52DAP	0.91199	0.511
57DAP/7DAP	1.0407	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01164	0.682
17DAP/reference	1.02883	0.971
27DAP/reference	1.04646	0.804
39DAP/reference	0.85459	0.126
41DAP/reference	0.97367	0.489
42DAP/reference	0.82453	0.011
43DAP/reference	0.96856	0.459
47DAP/reference	0.90783	0.383
52DAP/reference	0.99629	0.621
57DAP/reference	1.25058	0.117

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.786	0.093
17DAP/reference	0.64483	0.005
27DAP/reference	0.72338	0.053
39DAP/reference	0.74123	0.04
41DAP/reference	0.75789	0.042
42DAP/reference	0.69283	0.02
43DAP/reference	0.98069	0.646
47DAP/reference	0.83963	0.015
52DAP/reference	0.57834	0.004
57DAP/reference	0.51334	0.008

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0276	0.903
17DAP/reference	1.06632	0.738
27DAP/reference	0.95638	0.357
39DAP/reference	0.84809	0.046
41DAP/reference	1.0025	0.826
42DAP/reference	1.07384	0.54
43DAP/reference	1.25293	0.046
47DAP/reference	0.7701	0.125
52DAP/reference	1.00832	0.781
57DAP/reference	0.89343	0.326

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.20043	0.916
26DAP/20DAP	0.9399	1
34DAP/26DAP	0.79813	0.44
51DAP/34DAP	8.69421	0.031
52DAP/51DAP	0.38495	0.07
53DAP/52DAP	4.10761	0.022
55DAP/53DAP	0.84532	0.144
57DAP/55DAP	0.92491	0.633
62DAP/57DAP	0.34806	0.002
68DAP/62DAP	1.52252	0.278
68DAP/14DAP	3.93131	0.021

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.4753	0.033

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.04518	0.036
Mature Green Tomato/Ripe Tomato	1.22739	0.437
Immature Eggplant/Mature Eggplant	0.92893	0.808
Ripe Pepper/Ripe Tomato	13.7069	0.258
Mature Eggplant/Ripe Tomato	0.7675	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.09373	1
1-1-2/M82	1.05688	1
12-2/M82	1.12694	1
12-4/M82	1.12187	1
1-3/M82	1.02317	1
2-1-1/M82	1.03394	1
2-1/M82	1.12643	0.328
2-6/M82	0.95052	1
3-2/M82	1.01279	1
4-1-1/M82	1.01182	1
4-1/M82	1.19263	1
4-3-2/M82	1.03809	1
4-3/M82	1.11648	1
5-3/M82	0.94855	0.49
6-2/M82	1.03149	1
6-3/M82	1.02676	1
7-1/M82	0.9185	0.443
7-2/M82	1.07883	1
9-3-2/M82	1.45087	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.76764	0.243
IL2-6/WTpooled	0.93451	1
IL7-5/WTpooled	1.23598	0.75
IL7-3/WTpooled	0.81606	0.418
IL12-4/WTpooled	0.94124	0.71
IL1-4/WTpooled	0.94267	0.834
WT/WTpooled	0.98396	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	1.68585	0.193

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00803	1
DC3000/delta hrp 6h	1.20758	1
DC3000/delta hrp 12h	1.14411	1
DC3000/delta hrp 24h	1.03531	0.728

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	9.7491

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98742	1
Exp 36h	0.65826	0.406
Exp 60h	0.54708	0.249

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99641	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.21244
Var 12h NI row2-row1	0.39258	1
Var 36h I row2-row1	1.05243	1
Var 36h NI row2-row1	1.90313
Var 60h I row2-row1	0.86999	0.285
Var 60h NI row2-row1	1.62666	1
Time course 0hI-0hNI	0.86677	0.138
Time course 12hI-12hNI	0.95557	0.808
Time course 36hI-36hNI	0.80799	0.034
Time course 60hI-60hNI	1.2977	0.017

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)	1.05129	0.699
transgenic ySAMdc/azygous control (breaker)	1.2132	1
transgenic ySAMdc/azygous control (red)	1.1713	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.86278	0.186

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.27785	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	3.22125	0.09
Manapal/WT (break)	0.9101	1
Manapal/WT (red)	N/A	N/A