Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.8.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18888	0.452
27DAP/17DAP	0.98464	1
39DAP/27DAP	0.93543	0.641
41DAP/39DAP	0.9641	0.828
42DAP/41DAP	1.02617	1
43DAP/42DAP	0.98432	0.93
47DAP/43DAP	1.07599	0.873
52DAP/47DAP	1.10396	0.879
57DAP/52DAP	1.1059	0.907

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85665	0.075
17DAP/reference	0.83884	0.031
27DAP/reference	1.00646	0.923
39DAP/reference	1.04978	0.423
41DAP/reference	0.96477	0.667
42DAP/reference	0.91457	0.067
43DAP/reference	0.92554	0.331
47DAP/reference	1.08234	0.627
52DAP/reference	1.05534	0.8
57DAP/reference	1.27883	0.01

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96855	0.732
27DAP/17DAP	0.73747	0.39
39DAP/27DAP	1.12816	0.56
41DAP/39DAP	0.89291	0.495
42DAP/41DAP	1.42113	0.155
43DAP/42DAP	0.93942	0.466
47DAP/43DAP	0.92487	0.656
52DAP/47DAP	1.22926	0.412
57DAP/52DAP	0.92064	0.546
57DAP/7DAP	1.05339	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89273	0.138
17DAP/reference	0.93793	0.22
27DAP/reference	0.92817	0.048
39DAP/reference	0.83567	0.016
41DAP/reference	0.74276	0.025
42DAP/reference	0.6621	0.01
43DAP/reference	0.81873	0.034
47DAP/reference	0.87611	0.066
52DAP/reference	0.82245	0.021
57DAP/reference	0.85845	0.039

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86465	0.231
17DAP/reference	0.91054	0.214
27DAP/reference	0.87636	0.071
39DAP/reference	0.92322	0.281
41DAP/reference	0.94774	0.307
42DAP/reference	0.95357	0.355
43DAP/reference	1.23178	0.288
47DAP/reference	0.99301	0.66
52DAP/reference	0.91447	0.187
57DAP/reference	0.90555	0.144

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87791	0.077
17DAP/reference	0.98207	0.668
27DAP/reference	1.10345	0.143
39DAP/reference	0.91605	0.05
41DAP/reference	0.97014	0.512
42DAP/reference	1.00486	1
43DAP/reference	0.89062	0.165
47DAP/reference	1.02302	1
52DAP/reference	1.1235	0.735
57DAP/reference	1.07426	0.25

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.1624	0.966
26DAP/20DAP	1.14291	0.7
34DAP/26DAP	0.70099	0.152
51DAP/34DAP	1.16871	0.898
52DAP/51DAP	0.89611	1
53DAP/52DAP	1.18284	0.594
55DAP/53DAP	1.2338	0.681
57DAP/55DAP	0.88411	0.508
62DAP/57DAP	1.08194	1
68DAP/62DAP	1.23398	0.792
68DAP/14DAP	2.73907	0.189

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.89144	0.399

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.8104
Mature Green Tomato/Ripe Tomato	0.70313	0.055
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.58691	0.224
Mature Eggplant/Ripe Tomato	0.19935	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.06488	0.505
1-1-2/M82	1.01209	1
12-2/M82	1.00605	1
12-4/M82	0.98355	1
1-3/M82	0.77257	0.376
2-1-1/M82	1.00621	1
2-1/M82	0.95477	1
2-6/M82	0.84235	1
3-2/M82	0.99364	1
4-1-1/M82	0.93424	1
4-1/M82	1.31197	1
4-3-2/M82	0.96486	1
4-3/M82	1.0506	1
5-3/M82	1.0475	1
6-2/M82	0.70498	0.481
6-3/M82	0.97871	1
7-1/M82	1.04594	1
7-2/M82	0.91104	0.796
9-3-2/M82	1.23407	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.29082	0.277
IL2-6/WTpooled	0.6529	0.473
IL7-5/WTpooled	0.98337	1
IL7-3/WTpooled	1.04173	1
IL12-4/WTpooled	0.87408	0.71
IL1-4/WTpooled	0.96066	0.834
WT/WTpooled	0.99857	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	1.23425	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11515	0.774
DC3000/delta hrp 6h	1.17053	1
DC3000/delta hrp 12h	1.01519	1
DC3000/delta hrp 24h	0.98206	0.934

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.79629
DC3000 delta B/DC3000 delta AB	0.72603	0.091

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.97431	1
Exp 36h	0.85341	0.749
Exp 60h	1.29833	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.06088	1
Var 0h	0.84228	1
Var 12h I row2-row1	1.01847	0.692
Var 12h NI row2-row1	0.93058	0.488
Var 36h I row2-row1	1.0378	1
Var 36h NI row2-row1	1.41192	1
Var 60h I row2-row1	1.02076
Var 60h NI row2-row1	0.98789	1
Time course 0hI-0hNI	0.98325	0.95
Time course 12hI-12hNI	0.96975	0.827
Time course 36hI-36hNI	0.98729	0.632
Time course 60hI-60hNI	0.70835	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)	0.9654	0.454
transgenic ySAMdc/azygous control (breaker)	0.85759	0.137
transgenic ySAMdc/azygous control (red)	0.93917	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95691	0.056

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.89494	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.0839	1
Manapal/WT (break)	0.97997	1
Manapal/WT (red)	0.74396	0.183