Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-1.2.20.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08477	0.798
27DAP/17DAP	0.95844	0.973
39DAP/27DAP	0.9045	0.482
41DAP/39DAP	1.11618	0.691
42DAP/41DAP	1.43661	0.843
43DAP/42DAP	1.20542	0.644
47DAP/43DAP	1.52336	0.609
52DAP/47DAP	1.1484	0.982
57DAP/52DAP	1.09724	0.964

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.53749	0.211
17DAP/reference	2.3946	N/A
27DAP/reference	1.01262	0.779
39DAP/reference	N/A	N/A
41DAP/reference	0.3674	0.049
42DAP/reference	0.69996	0.001
43DAP/reference	1.46587	N/A
47DAP/reference	0.67678	0.003
52DAP/reference	N/A	N/A
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96707	0.644
27DAP/17DAP	1.06702	0.775
39DAP/27DAP	1.19004	0.41
41DAP/39DAP	1.05938	0.705
42DAP/41DAP	1.04873	0.861
43DAP/42DAP	1.04548	0.699
47DAP/43DAP	1.02586	0.837
52DAP/47DAP	0.99282	0.947
57DAP/52DAP	0.95167	0.418
57DAP/7DAP	0.91707	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18859	0.119
17DAP/reference	0.88651	0.144
27DAP/reference	0.92057	0.231
39DAP/reference	0.969	0.474
41DAP/reference	0.96984	0.469
42DAP/reference	0.94495	0.289
43DAP/reference	1.00947	1
47DAP/reference	1.00824	1
52DAP/reference	0.90032	0.278
57DAP/reference	1.11764	0.308

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88997	0.353
17DAP/reference	0.93613	0.357
27DAP/reference	0.90532	N/A
39DAP/reference	0.89374	0.243
41DAP/reference	1.48948	0.642
42DAP/reference	0.81109	0.261
43DAP/reference	0.76474	0.077
47DAP/reference	0.91338	0.085
52DAP/reference	0.80327	0.034
57DAP/reference	0.63301	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25416	0.052
17DAP/reference	0.90032	0.198
27DAP/reference	1.01273	0.883
39DAP/reference	0.92501	0.222
41DAP/reference	0.8587	0.185
42DAP/reference	0.90376	0.287
43DAP/reference	1.07221	0.541
47DAP/reference	0.88312	0.06
52DAP/reference	1.24649	0.491
57DAP/reference	1.03146	0.828

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.10345	1
26DAP/20DAP	0.9899	1
34DAP/26DAP	1.02591	1
51DAP/34DAP	1.08171	0.654
52DAP/51DAP	0.94779	1
53DAP/52DAP	1.1268	0.662
55DAP/53DAP	1.00169	0.917
57DAP/55DAP	1.23359	0.805
62DAP/57DAP	0.87259	0.162
68DAP/62DAP	1.97422	0.023
68DAP/14DAP	2.89948	0.023

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.35098	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.74731	0.204
Mature Green Tomato/Ripe Tomato	1.23718	0.363
Immature Eggplant/Mature Eggplant	0.94981	0.545
Ripe Pepper/Ripe Tomato	1.05871	1
Mature Eggplant/Ripe Tomato	0.83663	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01649	1
1-1-2/M82	1.12559	1
12-2/M82	0.8721	0.74
12-4/M82	1.08898	1
1-3/M82	0.95316	1
2-1-1/M82	0.99441	1
2-1/M82	1.10311	1
2-6/M82	0.94164	1
3-2/M82	N/A	N/A
4-1-1/M82	1.08564	0.977
4-1/M82	1.15981	1
4-3-2/M82	1.05815	0.508
4-3/M82	1.10496	1
5-3/M82	0.97492	1
6-2/M82	1.04037	1
6-3/M82	1.02379	1
7-1/M82	1.01437	1
7-2/M82	1.01969	1
9-3-2/M82	1.19732	0.196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.20076	0.277
IL2-6/WTpooled	0.998	1
IL7-5/WTpooled	0.9921	1
IL7-3/WTpooled	1.27448	1
IL12-4/WTpooled	1.17997	0.737
IL1-4/WTpooled	1.08899	0.426
WT/WTpooled	1.00004	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	1.01797	0.921
DC3000/delta hrp 6h	1.25928	1
DC3000/delta hrp 12h	0.95727	N/A
DC3000/delta hrp 24h	0.97913	0.978

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.17879	0.333
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.9787	1
Exp 36h	1.12968	0.693
Exp 60h	1.51297	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01533	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.87511	0.514
Var 12h NI row2-row1	1.08714	0.649
Var 36h I row2-row1	1.15064	0.489
Var 36h NI row2-row1	1.31249	1
Var 60h I row2-row1	0.59534	N/A
Var 60h NI row2-row1	0.89717	0.818
Time course 0hI-0hNI	0.9431	0.56
Time course 12hI-12hNI	1.09923	0.603
Time course 36hI-36hNI	1.14482	0.039
Time course 60hI-60hNI	2.40785	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)	1.1148	0.372
transgenic ySAMdc/azygous control (breaker)	0.97966	1
transgenic ySAMdc/azygous control (red)	1.18626	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.2611	0.042

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.66698	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.84018	1
Manapal/WT (break)	1.10287	1
Manapal/WT (red)	0.93957	0.503