Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.19.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02557	1
27DAP/17DAP	1.1889	0.839
39DAP/27DAP	1.00963	0.749
41DAP/39DAP	1.36934	0.352
42DAP/41DAP	0.81927	1
43DAP/42DAP	0.9443	0.877
47DAP/43DAP	0.98277	0.902
52DAP/47DAP	1.1678	0.63
57DAP/52DAP	1.03804	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03014	0.814
17DAP/reference	0.9513	0.298
27DAP/reference	1.00452	1
39DAP/reference	0.9638	0.68
41DAP/reference	1.01694	0.759
42DAP/reference	1.05211	0.68
43DAP/reference	0.96655	0.36
47DAP/reference	1.03351	0.728
52DAP/reference	1.01763	1
57DAP/reference	0.95277	0.186

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89656	0.158
27DAP/17DAP	0.97833	0.878
39DAP/27DAP	1.05261	0.514
41DAP/39DAP	1.03877	0.909
42DAP/41DAP	1.0241	1
43DAP/42DAP	1.06656	0.297
47DAP/43DAP	1.01359	0.95
52DAP/47DAP	0.96182	0.797
57DAP/52DAP	0.9817	0.721
57DAP/7DAP	1.01949	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94502	0.104
17DAP/reference	0.94031	0.22
27DAP/reference	0.93278	0.035
39DAP/reference	0.95949	0.023
41DAP/reference	0.90438	0.058
42DAP/reference	0.80017	0.01
43DAP/reference	0.97181	0.44
47DAP/reference	0.9279	0.383
52DAP/reference	0.9165	0.232
57DAP/reference	0.86607	0.071

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00917	0.787
17DAP/reference	1.05758	0.094
27DAP/reference	0.90326	0.123
39DAP/reference	1.03662	0.639
41DAP/reference	0.9957	0.631
42DAP/reference	0.93849	0.121
43DAP/reference	1.02554	0.777
47DAP/reference	0.9492	0.194
52DAP/reference	1.07078	0.026
57DAP/reference	1.15724	0.057

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91722	0.042
17DAP/reference	0.97951	0.579
27DAP/reference	0.98369	0.624
39DAP/reference	1.01237	0.813
41DAP/reference	0.95803	0.417
42DAP/reference	0.89185	0.108
43DAP/reference	0.9634	0.305
47DAP/reference	0.92429	0.097
52DAP/reference	1.03168	0.941
57DAP/reference	0.73679	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01197	1
26DAP/20DAP	0.89529	0.512
34DAP/26DAP	1.00597	1
51DAP/34DAP	0.99033	0.901
52DAP/51DAP	1.1562	0.092
53DAP/52DAP	1.03823	0.806
55DAP/53DAP	0.99426	0.894
57DAP/55DAP	0.99156	0.921
62DAP/57DAP	0.82778	0.28
68DAP/62DAP	0.77077	0.345
68DAP/14DAP	0.87198	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91156	0.137

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.02407	1
Mature Green Tomato/Ripe Tomato	1.00829	0.835
Immature Eggplant/Mature Eggplant	1.21928	0.078
Ripe Pepper/Ripe Tomato	1.15679	1
Mature Eggplant/Ripe Tomato	1.65777	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.79673	0.56
1-1-2/M82	0.8699	0.958
12-2/M82	N/A	N/A
12-4/M82	0.99643	1
1-3/M82	0.67307
2-1-1/M82	1.08139
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.15627
4-1-1/M82	N/A	N/A
4-1/M82	0.6808
4-3-2/M82	0.75076	0.698
4-3/M82	1.01673
5-3/M82	1.06129	1
6-2/M82	N/A	N/A
6-3/M82	0.9561
7-1/M82	N/A	N/A
7-2/M82	0.95871
9-3-2/M82	0.75978	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.58623	0.277
IL2-6/WTpooled	0.61357
IL7-5/WTpooled	0.98215	1
IL7-3/WTpooled	1.60686	0.362
IL12-4/WTpooled	1.12827	0.785
IL1-4/WTpooled	1.14265	0.426
WT/WTpooled	1.05454	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	0.88174	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94817	1
DC3000/delta hrp 6h	0.96393	0.95
DC3000/delta hrp 12h	0.91177	1
DC3000/delta hrp 24h	1.15019	0.411

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.04908	0.515
DC3000 delta B/DC3000 delta AB	1.00128	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.0317	1
Exp 36h	1.07725	0.693
Exp 60h	1.23699	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04155	1
Var 0h	0.51386	1
Var 12h I row2-row1	0.90968	0.705
Var 12h NI row2-row1	1.08362	1
Var 36h I row2-row1	0.7219	0.805
Var 36h NI row2-row1	1.10978	1
Var 60h I row2-row1	0.92932	0.293
Var 60h NI row2-row1	0.97947	1
Time course 0hI-0hNI	1.01398	0.867
Time course 12hI-12hNI	0.91496	0.334
Time course 36hI-36hNI	0.89326	0.108
Time course 60hI-60hNI	0.98619	0.646

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)	0.96922	0.428
transgenic ySAMdc/azygous control (breaker)	0.8818	0.251
transgenic ySAMdc/azygous control (red)	1.02407	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94829	0.149

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.94367	0.431

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.96455	1
Manapal/WT (break)	0.99271	1
Manapal/WT (red)	1.02294	1