Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.13.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98463	0.847
27DAP/17DAP	1.0578	0.883
39DAP/27DAP	0.7567	0.399
41DAP/39DAP	1.44488	0.259
42DAP/41DAP	1.04612	1
43DAP/42DAP	0.92501	0.863
47DAP/43DAP	1.10972	0.647
52DAP/47DAP	1.19631	0.613
57DAP/52DAP	1.10856	0.948

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99584	0.743
17DAP/reference	1.06845	0.33
27DAP/reference	1.08867	0.17
39DAP/reference	1.06166	0.209
41DAP/reference	1.09193	0.667
42DAP/reference	0.97425	0.151
43DAP/reference	0.98178	0.631
47DAP/reference	0.96168	0.127
52DAP/reference	0.85597	0.102
57DAP/reference	0.97837	0.503

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97158	0.578
27DAP/17DAP	1.01191	0.96
39DAP/27DAP	1.02334	0.672
41DAP/39DAP	1.09731	0.674
42DAP/41DAP	0.97239	0.746
43DAP/42DAP	0.95913	0.172
47DAP/43DAP	1.0088	0.941
52DAP/47DAP	1.00717	0.979
57DAP/52DAP	1.06087	0.627
57DAP/7DAP	1.08833	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88501	0.122
17DAP/reference	0.90022	0.031
27DAP/reference	0.96031	0.055
39DAP/reference	0.95684	0.083
41DAP/reference	0.99241	0.741
42DAP/reference	0.92135	0.09
43DAP/reference	0.90877	0.126
47DAP/reference	0.89937	0.057
52DAP/reference	0.87331	0.021
57DAP/reference	0.86591	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04933	0.404
17DAP/reference	0.99051	0.711
27DAP/reference	0.89637	0.173
39DAP/reference	0.9057	0.178
41DAP/reference	0.99924	0.649
42DAP/reference	1.06811	0.697
43DAP/reference	1.163	0.297
47DAP/reference	1.18471	0.026
52DAP/reference	1.00762	1
57DAP/reference	1.09436	0.123

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98321	0.607
17DAP/reference	1.00045	0.9
27DAP/reference	0.97947	0.539
39DAP/reference	0.93131	0.076
41DAP/reference	1.02501	0.939
42DAP/reference	0.93381	0.134
43DAP/reference	0.89504	0.11
47DAP/reference	0.98664	0.593
52DAP/reference	0.95836	0.562
57DAP/reference	1.00102	0.779

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97989	1
26DAP/20DAP	0.95297	0.317
34DAP/26DAP	1.0566	1
51DAP/34DAP	0.8974	0.458
52DAP/51DAP	0.95723	1
53DAP/52DAP	1.10656	0.552
55DAP/53DAP	0.97226	0.735
57DAP/55DAP	1.00142	0.944
62DAP/57DAP	1.08441	0.8
68DAP/62DAP	1.01312	0.914
68DAP/14DAP	0.92229	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97936	0.607

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.02968	0.058
Mature Green Tomato/Ripe Tomato	0.80851	0.148
Immature Eggplant/Mature Eggplant	1.37194	0.055
Ripe Pepper/Ripe Tomato	5.44979
Mature Eggplant/Ripe Tomato	4.22004

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.992	1
1-1-2/M82	1.02178	1
12-2/M82	1.15704	1
12-4/M82	0.95451	1
1-3/M82	0.93628	0.441
2-1-1/M82	1.14185	0.764
2-1/M82	1.37877	1
2-6/M82	1.07304	0.505
3-2/M82	1.07143	0.426
4-1-1/M82	1.04172	1
4-1/M82	1.05577	1
4-3-2/M82	1.09312	1
4-3/M82	1.10591	1
5-3/M82	1.0646	1
6-2/M82	1.12581	1
6-3/M82	0.95785	1
7-1/M82	0.94224	1
7-2/M82	1.04425	0.385
9-3-2/M82	0.98752	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.94382
IL2-6/WTpooled	0.90241	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.11187	1
IL12-4/WTpooled	1.09514	0.546
IL1-4/WTpooled	1.07037
WT/WTpooled	0.85476	0.873

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	1.14119	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97402	1
DC3000/delta hrp 6h	0.70777
DC3000/delta hrp 12h	1.21913	1
DC3000/delta hrp 24h	1.06356	0.467

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.99209	1
DC3000 delta B/DC3000 delta AB	1.01502	0.687

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	0.95269	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01672	1
Var 0h	1.01043	1
Var 12h I row2-row1	1.14802	0.263
Var 12h NI row2-row1	0.96323	0.82
Var 36h I row2-row1	0.89988	0.805
Var 36h NI row2-row1	0.90901	0.549
Var 60h I row2-row1	1.7394	0.562
Var 60h NI row2-row1	1.15165	0.904
Time course 0hI-0hNI	1.08416	0.852
Time course 12hI-12hNI	1.04886	0.756
Time course 36hI-36hNI	0.94983	0.441
Time course 60hI-60hNI	1.25158	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)	0.99411	0.931
transgenic ySAMdc/azygous control (breaker)	1.12283	1
transgenic ySAMdc/azygous control (red)	1.18833	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01126	0.495

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.9719	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.95789	1
Manapal/WT (break)	1.21046	1
Manapal/WT (red)	1.29312	0.413