Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.16.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08384	0.827
27DAP/17DAP	1.09072	0.859
39DAP/27DAP	0.98914	0.749
41DAP/39DAP	1.25592	0.63
42DAP/41DAP	0.8529	1
43DAP/42DAP	1.03441	1
47DAP/43DAP	1.15101	0.702
52DAP/47DAP	1.08756	0.856
57DAP/52DAP	0.9139	0.89

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12424	0.32
17DAP/reference	0.95772	0.419
27DAP/reference	0.888	0.025
39DAP/reference	0.95017	0.455
41DAP/reference	0.95492	0.434
42DAP/reference	1.03363	1
43DAP/reference	0.92279	0.17
47DAP/reference	0.95699	0.191
52DAP/reference	1.09356	0.229
57DAP/reference	0.90632	0.038

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92191	0.388
27DAP/17DAP	1.03534	0.887
39DAP/27DAP	1.08975	0.46
41DAP/39DAP	1.0807	0.727
42DAP/41DAP	1.00523	1
43DAP/42DAP	0.99664	1
47DAP/43DAP	0.97611	0.833
52DAP/47DAP	0.99534	0.959
57DAP/52DAP	1.10213	0.529
57DAP/7DAP	0.98601	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04954	0.927
17DAP/reference	0.9325	0.253
27DAP/reference	1.14155	0.197
39DAP/reference	0.99527	0.745
41DAP/reference	1.08913	0.745
42DAP/reference	1.01925	0.828
43DAP/reference	0.94357	0.279
47DAP/reference	0.90983	0.293
52DAP/reference	1.20108	0.046
57DAP/reference	1.12594	0.356

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09928	0.501
17DAP/reference	1.00325	0.766
27DAP/reference	1.19124	0.178
39DAP/reference	1.06925	0.588
41DAP/reference	1.01249	0.735
42DAP/reference	1.01733	1
43DAP/reference	1.01267	0.801
47DAP/reference	1.01899	0.965
52DAP/reference	1.10999	0.038
57DAP/reference	0.94152	0.384

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04627	0.397
17DAP/reference	1.02971	0.865
27DAP/reference	0.9214	0.243
39DAP/reference	0.96609	0.464
41DAP/reference	1.30009	0.044
42DAP/reference	0.98843	0.816
43DAP/reference	1.35031	0.042
47DAP/reference	0.91625	0.207
52DAP/reference	0.9667	0.637
57DAP/reference	1.00922	0.801

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99341	1
26DAP/20DAP	1.13773	0.587
34DAP/26DAP	0.88786	0.399
51DAP/34DAP	0.97065	0.799
52DAP/51DAP	0.97459	1
53DAP/52DAP	1.08989	0.662
55DAP/53DAP	1.04681	0.748
57DAP/55DAP	1.05008	0.865
62DAP/57DAP	0.93477	0.681
68DAP/62DAP	0.83316	0.245
68DAP/14DAP	1.17357	0.889

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97667	0.576

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.80629	0.282
Mature Green Tomato/Ripe Tomato	0.85205	0.287
Immature Eggplant/Mature Eggplant	1.20177	0.11
Ripe Pepper/Ripe Tomato	0.89219	1
Mature Eggplant/Ripe Tomato	0.92869

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	1.00537
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	1.14249
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	N/A	N/A
IL2-6/WTpooled	1.38627	0.395
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.76044	1
IL12-4/WTpooled	1.14202	0.673
IL1-4/WTpooled	1.608
WT/WTpooled	0.97329	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	1.09686	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0572	0.921
DC3000/delta hrp 6h	1.08948	1
DC3000/delta hrp 12h	1.0432	1
DC3000/delta hrp 24h	1.049	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.08894	0.313
DC3000 delta B/DC3000 delta AB	1.16913	0.298

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.94153	0.213
Exp 36h	0.95833	0.943
Exp 60h	1.07795	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98941	1
Var 0h	0.43703	1
Var 12h I row2-row1	1.04853	0.736
Var 12h NI row2-row1	1.03535	1
Var 36h I row2-row1	1.17046	0.601
Var 36h NI row2-row1	0.79478	0.522
Var 60h I row2-row1	0.82916	0.439
Var 60h NI row2-row1	0.91535	0.431
Time course 0hI-0hNI	1.01007	0.867
Time course 12hI-12hNI	0.99709	1
Time course 36hI-36hNI	1.21649	0.014
Time course 60hI-60hNI	1.73029	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)	0.91313	0.289
transgenic ySAMdc/azygous control (breaker)	0.83043	0.134
transgenic ySAMdc/azygous control (red)	0.9677	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06373	0.148

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.74193	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.95427	1
Manapal/WT (break)	0.97082	1
Manapal/WT (red)	1.19534	0.413