Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-4.2.14.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99924	0.961
27DAP/17DAP	1.06102	0.881
39DAP/27DAP	0.97266	0.733
41DAP/39DAP	1.27956	0.321
42DAP/41DAP	0.9598	1
43DAP/42DAP	0.92472	0.787
47DAP/43DAP	1.20432	0.659
52DAP/47DAP	1.58326	0.325
57DAP/52DAP	1.03518	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26514	0.218
17DAP/reference	0.91867	0.031
27DAP/reference	1.03547	0.771
39DAP/reference	0.9717	0.6
41DAP/reference	0.9806	0.667
42DAP/reference	1.08626	0.219
43DAP/reference	0.94052	0.118
47DAP/reference	0.96906	0.322
52DAP/reference	1.028	0.548
57DAP/reference	0.96927	0.156

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98693	0.763
27DAP/17DAP	0.99056	0.943
39DAP/27DAP	1.01525	0.793
41DAP/39DAP	1.00149	1
42DAP/41DAP	1.00934	1
43DAP/42DAP	1.02036	0.746
47DAP/43DAP	0.99941	1
52DAP/47DAP	1.04563	0.816
57DAP/52DAP	1.04612	0.718
57DAP/7DAP	1.09365	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81508	0.091
17DAP/reference	0.69794	0.013
27DAP/reference	0.6988	0.014
39DAP/reference	0.92353	0.307
41DAP/reference	0.96908	0.489
42DAP/reference	0.85476	0.09
43DAP/reference	0.81306	0.017
47DAP/reference	0.88666	0.079
52DAP/reference	0.75274	0.017
57DAP/reference	0.73854	0.01

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1547	0.249
17DAP/reference	1.08432	0.508
27DAP/reference	1.23633	0.182
39DAP/reference	1.11144	0.132
41DAP/reference	0.96248	0.412
42DAP/reference	0.96507	0.392
43DAP/reference	1.20711	0.038
47DAP/reference	0.91666	0.133
52DAP/reference	1.0814	0.279
57DAP/reference	1.07166	0.705

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84934	0.048
17DAP/reference	0.92836	0.322
27DAP/reference	0.84794	0.051
39DAP/reference	0.9326	0.393
41DAP/reference	0.8176	0.077
42DAP/reference	0.77991	0.028
43DAP/reference	0.83811	0.11
47DAP/reference	0.96766	0.348
52DAP/reference	1.01237	0.65
57DAP/reference	0.70093	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99648	1
26DAP/20DAP	0.99343	1
34DAP/26DAP	1.03815	1
51DAP/34DAP	0.93084	0.449
52DAP/51DAP	1.01966	0.821
53DAP/52DAP	1.07306	0.594
55DAP/53DAP	1.10633	0.317
57DAP/55DAP	1.07243	0.915
62DAP/57DAP	0.97324	0.994
68DAP/62DAP	0.92201	0.609
68DAP/14DAP	0.95884	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.93298	0.399

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.10491	0.417
Mature Green Tomato/Ripe Tomato	0.84248	0.347
Immature Eggplant/Mature Eggplant	1.04099	0.485
Ripe Pepper/Ripe Tomato	0.88943	0.293
Mature Eggplant/Ripe Tomato	1.92494	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96512	0.944
1-1-2/M82	0.92795	1
12-2/M82	1.08014	N/A
12-4/M82	0.90596	1
1-3/M82	0.94649	0.501
2-1-1/M82	1.04898	N/A
2-1/M82	1.02661	1
2-6/M82	N/A	N/A
3-2/M82	0.91636	N/A
4-1-1/M82	N/A	N/A
4-1/M82	0.74397	N/A
4-3-2/M82	0.86222	0.698
4-3/M82	0.90546	0.72
5-3/M82	1.03724	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.98366	1
9-3-2/M82	0.93269	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.0626	0.277
IL2-6/WTpooled	0.7868	0.473
IL7-5/WTpooled	1.14677	0.792
IL7-3/WTpooled	1.25194	0.362
IL12-4/WTpooled	1.11274	0.595
IL1-4/WTpooled	1.12049	1
WT/WTpooled	0.97386	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	0.9214	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95016	0.839
DC3000/delta hrp 6h	0.80951	0.942
DC3000/delta hrp 12h	1.03933	1
DC3000/delta hrp 24h	0.92893	0.363

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.07782	0.134
DC3000 delta B/DC3000 delta AB	1.08206	0.433

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02298	1
Exp 36h	0.85317	0.699
Exp 60h	0.89221	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95757	1
Var 0h	1.11762	0.325
Var 12h I row2-row1	1.15733	0.208
Var 12h NI row2-row1	1.03659	1
Var 36h I row2-row1	1.06568	1
Var 36h NI row2-row1	0.83014	0.584
Var 60h I row2-row1	1.50204	1
Var 60h NI row2-row1	0.95578	1
Time course 0hI-0hNI	1.10164	0.833
Time course 12hI-12hNI	1.09593	0.554
Time course 36hI-36hNI	1.04145	0.401
Time course 60hI-60hNI	1.50337	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)	0.95736	0.454
transgenic ySAMdc/azygous control (breaker)	1.08797	1
transgenic ySAMdc/azygous control (red)	0.94351	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98829	0.237

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.1978	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.82725	0.172
Manapal/WT (break)	0.96129	1
Manapal/WT (red)	0.9968	0.863