Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-6.3.16.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09915	0.863
27DAP/17DAP	0.92363	0.885
39DAP/27DAP	0.97496	0.798
41DAP/39DAP	0.86329	0.543
42DAP/41DAP	0.99297	1
43DAP/42DAP	1.10962	1
47DAP/43DAP	1.10382	0.909
52DAP/47DAP	1.14922	0.999
57DAP/52DAP	1.75342	0.894

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97306	0.455
17DAP/reference	0.99294	0.858
27DAP/reference	0.94265	0.152
39DAP/reference	1.00803	0.828
41DAP/reference	1.01964	0.667
42DAP/reference	0.94116	0.045
43DAP/reference	1.00857	0.812
47DAP/reference	0.98411	0.366
52DAP/reference	1.00286	1
57DAP/reference	0.918	0.068

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96575	0.496
27DAP/17DAP	1.01108	0.968
39DAP/27DAP	1.00573	0.854
41DAP/39DAP	1.09944	0.801
42DAP/41DAP	0.94791	0.545
43DAP/42DAP	1.04425	0.554
47DAP/43DAP	0.99823	0.997
52DAP/47DAP	0.98158	0.919
57DAP/52DAP	1.04058	0.726
57DAP/7DAP	1.08355	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92032	0.115
17DAP/reference	0.9614	0.295
27DAP/reference	0.91338	0.011
39DAP/reference	1.00182	1
41DAP/reference	0.90759	0.015
42DAP/reference	0.90729	0.012
43DAP/reference	0.90033	0.027
47DAP/reference	0.87543	0.128
52DAP/reference	0.87149	0.126
57DAP/reference	0.87442	0.028

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96667	0.475
17DAP/reference	0.93496	0.059
27DAP/reference	0.89259	0.188
39DAP/reference	0.89058	0.048
41DAP/reference	0.86809	0.137
42DAP/reference	0.90549	0.212
43DAP/reference	0.96123	0.423
47DAP/reference	0.97196	0.129
52DAP/reference	0.94935	0.156
57DAP/reference	1.0965	0.043

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93935	0.077
17DAP/reference	0.95768	0.322
27DAP/reference	0.99813	0.843
39DAP/reference	0.9781	0.299
41DAP/reference	0.93391	0.148
42DAP/reference	0.87153	0.041
43DAP/reference	0.93043	0.256
47DAP/reference	0.97313	0.452
52DAP/reference	0.92804	0.342
57DAP/reference	0.79903	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06154	0.966
26DAP/20DAP	0.92783	1
34DAP/26DAP	1.00649	1
51DAP/34DAP	1.0047	1
52DAP/51DAP	1.05976	0.51
53DAP/52DAP	1.11586	0.356
55DAP/53DAP	1.00884	0.964
57DAP/55DAP	1.0082	1
62DAP/57DAP	0.94549	0.681
68DAP/62DAP	1.01182	1
68DAP/14DAP	0.99459	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.99183	0.737

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.55472	0.105
Ripe Pepper/Ripe Tomato	1.6354	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.92576	N/A
1-1-2/M82	0.74973	N/A
12-2/M82	0.95414	0.955
12-4/M82	1.06951	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	1.10792	0.594
3-2/M82	1.0369	N/A
4-1-1/M82	0.98049	1
4-1/M82	0.80253	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.81022	N/A
5-3/M82	1.05888	1
6-2/M82	N/A	N/A
6-3/M82	0.97247	N/A
7-1/M82	N/A	N/A
7-2/M82	0.96379	0.881
9-3-2/M82	N/A	N/A

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	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.09068	N/A
WT/WTpooled	N/A	N/A

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	0.97177	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95992	1
DC3000/delta hrp 6h	0.77125	N/A
DC3000/delta hrp 12h	1.0296	1
DC3000/delta hrp 24h	1.05159	0.633

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.30355	0.042
DC3000 delta B/DC3000 delta AB	1.12099	0.327

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.75655	0.265
Exp 36h	N/A	N/A
Exp 60h	0.85994	0.253

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98489	1
Var 0h	0.34467	0.214
Var 12h I row2-row1	1.18354	0.189
Var 12h NI row2-row1	1.00504	1
Var 36h I row2-row1	0.98396	1
Var 36h NI row2-row1	0.90683	0.549
Var 60h I row2-row1	1.27966	0.562
Var 60h NI row2-row1	1.4482	0.904
Time course 0hI-0hNI	1.06183	0.867
Time course 12hI-12hNI	1.02758	0.811
Time course 36hI-36hNI	0.97269	0.433
Time course 60hI-60hNI	1.13463	0.137

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)	1.0085	0.789
transgenic ySAMdc/azygous control (breaker)	1.38576	1
transgenic ySAMdc/azygous control (red)	1.5107	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98042	0.163

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.99528	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.98384	1
Manapal/WT (break)	1.14224	1
Manapal/WT (red)	N/A	N/A