Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.11.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98037	0.83
27DAP/17DAP	1.01263	1
39DAP/27DAP	0.84518	0.435
41DAP/39DAP	1.29224	0.212
42DAP/41DAP	1.02996	1
43DAP/42DAP	0.91221	0.799
47DAP/43DAP	1.11395	0.769
52DAP/47DAP	1.0968	0.811
57DAP/52DAP	1.09338	0.907

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90806	0.162
17DAP/reference	0.9916	0.858
27DAP/reference	0.91616	0.124
39DAP/reference	0.98768	0.841
41DAP/reference	0.9909	0.814
42DAP/reference	0.93464	0.045
43DAP/reference	0.96646	0.48
47DAP/reference	0.96551	0.258
52DAP/reference	0.93553	0.341
57DAP/reference	0.90369	0.049

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00959	1
27DAP/17DAP	1.00355	1
39DAP/27DAP	1.0443	0.663
41DAP/39DAP	1.06005	0.807
42DAP/41DAP	0.95667	0.737
43DAP/42DAP	1.00382	1
47DAP/43DAP	1.03169	0.817
52DAP/47DAP	0.97061	0.902
57DAP/52DAP	1.00762	1
57DAP/7DAP	1.10213

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01643	1
17DAP/reference	1.00151	0.693
27DAP/reference	1.15472	0.16
39DAP/reference	1.00993	1
41DAP/reference	1.08838	0.35
42DAP/reference	0.95843	0.415
43DAP/reference	1.12943	0.432
47DAP/reference	0.91292	0.293
52DAP/reference	1.23582	0.092
57DAP/reference	1.16578	0.268

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0299	0.712
17DAP/reference	0.95264	0.239
27DAP/reference	0.98907	0.686
39DAP/reference	0.85864	0.039
41DAP/reference	0.85283	0.068
42DAP/reference	0.82901	0.022
43DAP/reference	0.88394	0.201
47DAP/reference	0.94279	0.019
52DAP/reference	0.94972	0.239
57DAP/reference	0.95072	0.433

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06914	0.775
17DAP/reference	0.96204	0.452
27DAP/reference	1.03641	0.721
39DAP/reference	0.92029	0.199
41DAP/reference	1.13453	0.455
42DAP/reference	0.93411	0.445
43DAP/reference	1.09753	0.418
47DAP/reference	0.88861	0.034
52DAP/reference	1.07132	0.674
57DAP/reference	0.77993	0.023

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05964	0.966
26DAP/20DAP	0.88213	0.512
34DAP/26DAP	0.9722	0.898
51DAP/34DAP	1.00488	0.988
52DAP/51DAP	1.02653	0.722
53DAP/52DAP	0.9278	0.695
55DAP/53DAP	0.9742	0.775
57DAP/55DAP	0.95588	0.812
62DAP/57DAP	0.92881	0.681
68DAP/62DAP	0.93195	0.787
68DAP/14DAP	1.01554	0.936

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9478	0.322

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.70864	0.208
Mature Green Tomato/Ripe Tomato	0.96103	0.611
Immature Eggplant/Mature Eggplant	0.81034	0.111
Ripe Pepper/Ripe Tomato	4.83711	0.258
Mature Eggplant/Ripe Tomato	1.325

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.06586	0.877
1-1-2/M82	0.97858	1
12-2/M82	0.97589	1
12-4/M82	1.00215	1
1-3/M82	0.93502	0.501
2-1-1/M82	1.10491	0.764
2-1/M82	1.26855	1
2-6/M82	0.99525	1
3-2/M82	0.96639	0.125
4-1-1/M82	0.96826	1
4-1/M82	1.07898	1
4-3-2/M82	0.87424	1
4-3/M82	1.01895	1
5-3/M82	1.05446	1
6-2/M82	0.99385	1
6-3/M82	0.76827	1
7-1/M82	1.07612	0.539
7-2/M82	1.02154	1
9-3-2/M82	0.87424	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.18484	0.659
IL7-5/WTpooled	0.41775
IL7-3/WTpooled	0.9224	1
IL12-4/WTpooled	0.83163	0.71
IL1-4/WTpooled	0.92758	0.562
WT/WTpooled	1.06062	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	0.76517	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.89887	0.849
DC3000/delta hrp 6h	1.1053	1
DC3000/delta hrp 12h	0.87279	1
DC3000/delta hrp 24h	0.98639	0.966

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.91282	0.341
DC3000 delta B/DC3000 delta AB	0.91356	0.152

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.94408	1
Exp 36h	0.84808	0.661
Exp 60h	0.86636	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98917	1
Var 0h	1.0991	0.782
Var 12h I row2-row1	0.96128	0.39
Var 12h NI row2-row1	0.9695	0.906
Var 36h I row2-row1	1.08062	0.908
Var 36h NI row2-row1	1.19334	0.482
Var 60h I row2-row1	1.25339	1
Var 60h NI row2-row1	1.12203	0.904
Time course 0hI-0hNI	0.96358	0.751
Time course 12hI-12hNI	0.96857	0.725
Time course 36hI-36hNI	0.86933	0.048
Time course 60hI-60hNI	0.59593	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)	0.88293	0.33
transgenic ySAMdc/azygous control (breaker)	1.01747	1
transgenic ySAMdc/azygous control (red)	1.24082	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.974	0.07

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.33039	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.11437	0.087
Manapal/WT (break)	1.46708	0.14
Manapal/WT (red)	0.93569	0.607