Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-4.2.14.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0687	0.964
27DAP/17DAP	1.17408	0.866
39DAP/27DAP	1.13582	0.622
41DAP/39DAP	0.77305	0.225
42DAP/41DAP	0.91121	1
43DAP/42DAP	1.08476	1
47DAP/43DAP	1.0351	0.864
52DAP/47DAP	1.24513	0.76
57DAP/52DAP	1.14571	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08842	0.567
17DAP/reference	1.13384	0.282
27DAP/reference	1.08651	0.365
39DAP/reference	0.90381	0.455
41DAP/reference	1.00321	0.814
42DAP/reference	0.92106	0.095
43DAP/reference	0.89993	0.273
47DAP/reference	0.87811	0.046
52DAP/reference	1.32836	0.012
57DAP/reference	1.13826	0.141

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95008	0.526
27DAP/17DAP	1.07504	0.9
39DAP/27DAP	1.09215	0.677
41DAP/39DAP	0.81037	0.083
42DAP/41DAP	1.05301	0.872
43DAP/42DAP	1.04347	0.382
47DAP/43DAP	0.93523	0.637
52DAP/47DAP	1.0932	0.724
57DAP/52DAP	1.28744	0.08
57DAP/7DAP	1.13329	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02214	0.999
17DAP/reference	0.80963	0.025
27DAP/reference	0.82087	0.03
39DAP/reference	0.80844	0.012
41DAP/reference	0.7764	0.052
42DAP/reference	0.78821	0.01
43DAP/reference	1.00384	0.727
47DAP/reference	0.94351	0.504
52DAP/reference	0.81146	0.066
57DAP/reference	0.78692	0.032

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97503	0.72
17DAP/reference	1.0411	0.851
27DAP/reference	1.04452	1
39DAP/reference	1.22962	0.021
41DAP/reference	1.07067	0.705
42DAP/reference	1.05575	1
43DAP/reference	1.57434	0.215
47DAP/reference	1.0394	0.89
52DAP/reference	1.23703	0.114
57DAP/reference	1.12728	0.116

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89836	0.061
17DAP/reference	0.98511	0.709
27DAP/reference	0.92432	0.416
39DAP/reference	0.91533	0.199
41DAP/reference	0.89557	0.293
42DAP/reference	0.97637	0.671
43DAP/reference	1.03145	0.867
47DAP/reference	0.945	0.383
52DAP/reference	1.12273	0.566
57DAP/reference	1.37963	0.018

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.82248	0.023
26DAP/20DAP	1.38113	0.278
34DAP/26DAP	0.97372	0.94
51DAP/34DAP	1.20474	0.496
52DAP/51DAP	1.43529	0.048
53DAP/52DAP	0.75825	0.073
55DAP/53DAP	1.29704	0.218
57DAP/55DAP	0.71513	0.066
62DAP/57DAP	1.24298	0.622
68DAP/62DAP	0.84782	0.579
68DAP/14DAP	1.26547	0.453

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.58961	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.82564	0.058
Mature Green Tomato/Ripe Tomato	1.52112	0.04
Immature Eggplant/Mature Eggplant	1.71376	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	N/A	N/A
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	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
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	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.03271	1
IL2-6/WTpooled	1.05797	0.788
IL7-5/WTpooled	1.20832	0.792
IL7-3/WTpooled	1.00139	1
IL12-4/WTpooled	0.92926	0.71
IL1-4/WTpooled	1.0803	1
WT/WTpooled	0.99386	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	0.77765	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	1.01624	0.95
DC3000/delta hrp 12h	1.10155	1
DC3000/delta hrp 24h	N/A	N/A

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.78712	0.161
DC3000 delta B/DC3000 delta AB	0.80422	0.121

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.83415	0.328
Exp 36h	1.07593	1
Exp 60h	1.04927	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03848	1
Var 0h	0.97553	1
Var 12h I row2-row1	1.23458	0.613
Var 12h NI row2-row1	0.97793	0.906
Var 36h I row2-row1	0.79342	1
Var 36h NI row2-row1	1.0237	1
Var 60h I row2-row1	0.90738	0.832
Var 60h NI row2-row1	1.02948	1
Time course 0hI-0hNI	0.91143	0.411
Time course 12hI-12hNI	0.93937	0.435
Time course 36hI-36hNI	0.90991	0.136
Time course 60hI-60hNI	0.3861	0.005

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)	1.0116	0.921
transgenic ySAMdc/azygous control (breaker)	1.01494	1
transgenic ySAMdc/azygous control (red)	0.91297	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99569	0.757

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.89481	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.05472	1
Manapal/WT (break)	1.0717	1
Manapal/WT (red)	0.96092	0.863