Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.19.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14342	0.827
27DAP/17DAP	1.1778	0.809
39DAP/27DAP	1.13838	0.692
41DAP/39DAP	0.87297	0.586
42DAP/41DAP	1.35556	0.536
43DAP/42DAP	0.87318	0.827
47DAP/43DAP	0.93514	0.76
52DAP/47DAP	1.34732	0.98
57DAP/52DAP	1.21631	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12245	0.846
17DAP/reference	1.03288	0.675
27DAP/reference	1.15932	0.33
39DAP/reference	1.12379	0.122
41DAP/reference	0.94979	0.542
42DAP/reference	1.05522	0.782
43DAP/reference	1.01662	1
47DAP/reference	1.12874	0.495
52DAP/reference	1.20385	0.73
57DAP/reference	1.37567	0.014

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09132	0.728
27DAP/17DAP	0.9664	0.878
39DAP/27DAP	0.9569	0.87
41DAP/39DAP	1.01916	1
42DAP/41DAP	1.1268	0.675
43DAP/42DAP	1.07471	0.664
47DAP/43DAP	0.92322	0.516
52DAP/47DAP	0.94268	0.834
57DAP/52DAP	0.94882	0.657
57DAP/7DAP	1.39278	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0006	0.682
17DAP/reference	1.00604	1
27DAP/reference	0.86345	0.117
39DAP/reference	0.94691	0.354
41DAP/reference	1.09378	0.767
42DAP/reference	1.00417	0.713
43DAP/reference	0.96265	0.459
47DAP/reference	0.93603	0.504
52DAP/reference	0.95305	0.363
57DAP/reference	0.7908	0.097

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75514	0.157
17DAP/reference	0.85816	0.095
27DAP/reference	1.33398	0.396
39DAP/reference	1.1959	0.2
41DAP/reference	1.05927	0.96
42DAP/reference	1.31327	0.009
43DAP/reference	0.99723	0.681
47DAP/reference	1.05241	0.603
52DAP/reference	1.0634	0.596
57DAP/reference	0.88538	0.243

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00554	0.75
17DAP/reference	1.16182	0.289
27DAP/reference	0.98119	0.624
39DAP/reference	0.93476	0.504
41DAP/reference	0.82045	0.167
42DAP/reference	0.98731	0.671
43DAP/reference	0.83747	0.294
47DAP/reference	1.13829	0.68
52DAP/reference	0.90554	0.395
57DAP/reference	1.18424	0.285

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.83213	0.43
26DAP/20DAP	0.99918	1
34DAP/26DAP	1.16341	1
51DAP/34DAP	1.43087	0.73
52DAP/51DAP	0.8567	1
53DAP/52DAP	0.97626	0.897
55DAP/53DAP	0.85851	0.5
57DAP/55DAP	0.99501	0.817
62DAP/57DAP	1.01738	1
68DAP/62DAP	1.84511	0.491
68DAP/14DAP	1.66212	0.094

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.33983	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.5832	0.018
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.92841
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.93042
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.79024
4-3/M82	0.62621
5-3/M82	0.8868
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	0.84075

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.73954	0.418
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.40809
WT/WTpooled	0.97698	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	0.97249	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.24085	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.36842	1
DC3000/delta hrp 24h	1.35888	0.221

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	3.76787

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
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	1.01673	1
Var 0h	5.28114	0.98
Var 12h I row2-row1	0.88915	0.31
Var 12h NI row2-row1	1.09656	0.34
Var 36h I row2-row1	1.22605	0.339
Var 36h NI row2-row1	0.70747	0.61
Var 60h I row2-row1	0.90604	0.285
Var 60h NI row2-row1	0.9418	0.977
Time course 0hI-0hNI	0.99471	1
Time course 12hI-12hNI	1.00747	0.867
Time course 36hI-36hNI	1.28534	0.005
Time course 60hI-60hNI	2.47069	0.008

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)	0.76765	0.529
transgenic ySAMdc/azygous control (breaker)	0.9084	1
transgenic ySAMdc/azygous control (red)	0.99829	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.91312	0.231

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.52492	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)	1.22371	1
Manapal/WT (red)	0.81265	0.181