Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.13.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97156	0.77
27DAP/17DAP	1.09131	0.905
39DAP/27DAP	0.99087	0.798
41DAP/39DAP	1.30549	0.225
42DAP/41DAP	1.09308	0.945
43DAP/42DAP	0.92327	0.765
47DAP/43DAP	0.89016	0.628
52DAP/47DAP	1.18907	0.605
57DAP/52DAP	1.04297	0.93

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07464	0.334
17DAP/reference	0.98675	0.597
27DAP/reference	1.05306	0.246
39DAP/reference	1.09731	0.434
41DAP/reference	0.97087	0.667
42DAP/reference	0.98879	0.44
43DAP/reference	1.01016	0.866
47DAP/reference	1.02801	0.379
52DAP/reference	1.14586	0.065
57DAP/reference	1.03779	0.132

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98058	0.663
27DAP/17DAP	1.01635	0.954
39DAP/27DAP	0.99779	1
41DAP/39DAP	1.04711	0.753
42DAP/41DAP	1.0075	0.999
43DAP/42DAP	0.97912	0.482
47DAP/43DAP	0.99049	0.954
52DAP/47DAP	0.99631	0.969
57DAP/52DAP	1.00816	1
57DAP/7DAP	0.9719	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95385	0.157
17DAP/reference	0.96899	0.447
27DAP/reference	1.0016	1
39DAP/reference	1.02789	0.267
41DAP/reference	1.0464	0.375
42DAP/reference	1.08926	0.046
43DAP/reference	1.02137	0.457
47DAP/reference	0.99446	1
52DAP/reference	1.04602	0.028
57DAP/reference	1.02524	0.571

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99824	0.97
17DAP/reference	1.01081	0.824
27DAP/reference	1.00244	1
39DAP/reference	0.97099	0.404
41DAP/reference	0.99602	0.649
42DAP/reference	1.0609	0.309
43DAP/reference	0.97718	0.581
47DAP/reference	1.03243	0.467
52DAP/reference	0.98442	0.537
57DAP/reference	0.97156	0.408

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98511	0.422
17DAP/reference	0.98372	0.488
27DAP/reference	0.99794	0.805
39DAP/reference	0.9469	0.133
41DAP/reference	0.98885	0.618
42DAP/reference	0.95959	0.22
43DAP/reference	0.99519	0.685
47DAP/reference	0.97081	0.231
52DAP/reference	1.05911	0.566
57DAP/reference	0.95934	0.333

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99265	1
26DAP/20DAP	1.02906	0.916
34DAP/26DAP	1.02061	1
51DAP/34DAP	0.99962	0.967
52DAP/51DAP	0.98471	1
53DAP/52DAP	1.03649	0.901
55DAP/53DAP	0.99382	0.894
57DAP/55DAP	0.81777	0.318
62DAP/57DAP	0.95304	0.871
68DAP/62DAP	0.91687	0.668
68DAP/14DAP	1.32855	0.521

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.00114	0.855

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.93912	0.673
Mature Green Tomato/Ripe Tomato	0.96216	0.66
Immature Eggplant/Mature Eggplant	1.09506	0.417
Ripe Pepper/Ripe Tomato	1.2906
Mature Eggplant/Ripe Tomato	1.96172

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00438	1
1-1-2/M82	0.93779	0.958
12-2/M82	0.97181	0.955
12-4/M82	1.01564	1
1-3/M82	1.01082	1
2-1-1/M82	0.87619	0.465
2-1/M82	0.96323	1
2-6/M82	0.96424	1
3-2/M82	0.95201	1
4-1-1/M82	0.97431	1
4-1/M82	0.88035	0.737
4-3-2/M82	0.93036	1
4-3/M82	0.92688	1
5-3/M82	0.98268	1
6-2/M82	1.13659	1
6-3/M82	1.01638	1
7-1/M82	1.00119	1
7-2/M82	0.89647	0.881
9-3-2/M82	0.89879	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.2844	0.419
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.01212	1
IL12-4/WTpooled	1.1506	0.646
IL1-4/WTpooled	1.009
WT/WTpooled	1.02091	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04608	0.758
DC3000/delta hrp 6h	1.05504	0.95
DC3000/delta hrp 12h	1.1127	1
DC3000/delta hrp 24h	1.06113	0.582

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.02934	0.556
DC3000 delta B/DC3000 delta AB	1.04231	0.539

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.23513	1
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97763	1
Var 0h	1.03316	1
Var 12h I row2-row1	1.18813	0.22
Var 12h NI row2-row1	0.95326	0.82
Var 36h I row2-row1	0.88311	1
Var 36h NI row2-row1	1.02375	1
Var 60h I row2-row1	1.19955	1
Var 60h NI row2-row1	1.11053	0.904
Time course 0hI-0hNI	1.0118	1
Time course 12hI-12hNI	1.03439	0.746
Time course 36hI-36hNI	0.87392	0.175
Time course 60hI-60hNI	0.95247	0.319

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)	0.97333	0.789
transgenic ySAMdc/azygous control (breaker)	1.61669	0.248
transgenic ySAMdc/azygous control (red)	1.43291	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99168	0.459

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.14778	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.16101	1
Manapal/WT (red)	0.88951	0.503