Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.20.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94959	0.683
27DAP/17DAP	1.1626	0.849
39DAP/27DAP	0.95959	0.67
41DAP/39DAP	0.97064	0.854
42DAP/41DAP	1.0996	1
43DAP/42DAP	1.03283	0.94
47DAP/43DAP	1.33708	0.442
52DAP/47DAP	1.10069	0.861
57DAP/52DAP	1.30143	0.918

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94455	0.362
17DAP/reference	1.09759	0.026
27DAP/reference	0.95503	0.525
39DAP/reference	0.99839	0.991
41DAP/reference	1.00345	1
42DAP/reference	0.93611	0.095
43DAP/reference	1.05125	0.678
47DAP/reference	1.17884	1
52DAP/reference	0.80666	0.075
57DAP/reference	0.8932	0.176

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92064	0.388
27DAP/17DAP	1.01115	0.973
39DAP/27DAP	1.06425	0.654
41DAP/39DAP	1.14197	0.763
42DAP/41DAP	1.08411	1
43DAP/42DAP	1.00768	1
47DAP/43DAP	1.01651	1
52DAP/47DAP	0.92695	0.66
57DAP/52DAP	0.94165	0.56
57DAP/7DAP	0.81501	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87553	0.27
17DAP/reference	0.85768	0.108
27DAP/reference	0.73177	0.01
39DAP/reference	0.81708	0.011
41DAP/reference	0.83041	0.036
42DAP/reference	0.77815	0.01
43DAP/reference	0.83366	0.035
47DAP/reference	0.91507	0.168
52DAP/reference	0.86533	0.028
57DAP/reference	0.74493	0.08

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00776	0.884
17DAP/reference	1.0091	0.898
27DAP/reference	0.89851	0.22
39DAP/reference	0.85578	0.095
41DAP/reference	0.91341	0.291
42DAP/reference	0.88509	0.039
43DAP/reference	1.1749	0.338
47DAP/reference	0.86985	0.021
52DAP/reference	0.93223	0.156
57DAP/reference	1.0019	0.754

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82331	0.04
17DAP/reference	0.98242	0.696
27DAP/reference	0.79275	0.039
39DAP/reference	0.79561	0.015
41DAP/reference	0.88511	0.024
42DAP/reference	0.71458	0.016
43DAP/reference	0.81234	0.079
47DAP/reference	1.01387	1
52DAP/reference	0.75278	0.139
57DAP/reference	0.69477	0.019

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.26566	0.966
26DAP/20DAP	0.81948	0.183
34DAP/26DAP	0.91073	0.735
51DAP/34DAP	1.05118	0.988
52DAP/51DAP	1.19824	0.111
53DAP/52DAP	1.11273	0.444
55DAP/53DAP	1.12826	0.576
57DAP/55DAP	1.05875	0.927
62DAP/57DAP	1.27466	0.069
68DAP/62DAP	0.82402	0.579
68DAP/14DAP	1.34057	0.265

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.85752	0.211

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.76023	0.411
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	0.84322	0.69
1-1-2/M82	0.86191	1
12-2/M82	N/A	N/A
12-4/M82	1.75925
1-3/M82	0.74816	0.501
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.98525
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.0828
4-3-2/M82	0.84665
4-3/M82	0.72055
5-3/M82	1.0186	1
6-2/M82	0.85677	1
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.89034	0.565
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.94919
IL2-6/WTpooled	0.77731	0.473
IL7-5/WTpooled	1.29287
IL7-3/WTpooled	1.04452	1
IL12-4/WTpooled	1.13041	0.646
IL1-4/WTpooled	1.29933	1
WT/WTpooled	0.96421	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	0.6677

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97848	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	1.09624	0.296

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.83928
DC3000 delta B/DC3000 delta AB	0.97531	0.745

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	1.0053	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.95892	0.856
Var 12h NI row2-row1	0.77963	0.443
Var 36h I row2-row1	0.88218	0.575
Var 36h NI row2-row1	0.70358	0.743
Var 60h I row2-row1	1.17648	0.543
Var 60h NI row2-row1	1.26963	0.904
Time course 0hI-0hNI	1.17993	0.662
Time course 12hI-12hNI	0.97594	0.864
Time course 36hI-36hNI	0.89334	0.187
Time course 60hI-60hNI	1.03258	1

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)	1.13543	0.397
transgenic ySAMdc/azygous control (breaker)	2.46745	0.178
transgenic ySAMdc/azygous control (red)	2.38798	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02059	0.395

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.16747	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.15743	1
Manapal/WT (break)	1.1955	1
Manapal/WT (red)	N/A	N/A