Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.1.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9221	0.551
27DAP/17DAP	0.92896	0.863
39DAP/27DAP	1.10572	0.765
41DAP/39DAP	0.94035	0.752
42DAP/41DAP	0.94038	1
43DAP/42DAP	0.94202	0.867
47DAP/43DAP	0.8598	0.555
52DAP/47DAP	1.24489	0.572
57DAP/52DAP	1.07807	0.883

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.931	0.379
17DAP/reference	1.01718	0.476
27DAP/reference	0.96935	0.265
39DAP/reference	0.96915	0.315
41DAP/reference	0.93143	0.154
42DAP/reference	1.17452	0.001
43DAP/reference	0.97565	0.576
47DAP/reference	1.10655	0.019
52DAP/reference	1.15097	0.062
57DAP/reference	1.04724	0.704

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04004	0.782
27DAP/17DAP	0.7074	0.218
39DAP/27DAP	0.99638	0.887
41DAP/39DAP	N/A	N/A
42DAP/41DAP	1.23273	0.571
43DAP/42DAP	1.37352	1
47DAP/43DAP	0.33006
52DAP/47DAP	1.11176	0.835
57DAP/52DAP	0.69834	0.147
57DAP/7DAP	1.90521	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97894	0.183
17DAP/reference	1.066	0.013
27DAP/reference	1.01669	0.804
39DAP/reference	0.99432	0.64
41DAP/reference	0.95761	0.166
42DAP/reference	0.93757	0.011
43DAP/reference	1.23181	0.045
47DAP/reference	1.08157	0.345
52DAP/reference	1.38206	0.028
57DAP/reference	1.3587	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07794	0.224
17DAP/reference	1.12641	0.11
27DAP/reference	1.17575	0.082
39DAP/reference	1.3704	0.016
41DAP/reference	1.19709	0.102
42DAP/reference	1.16704	0.18
43DAP/reference	1.17374	0.313
47DAP/reference	1.09052	0.321
52DAP/reference	1.09821	0.053
57DAP/reference	1.14026	0.037

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01379	0.775
17DAP/reference	1.01577	0.887
27DAP/reference	1.00049	0.883
39DAP/reference	1.08241	0.275
41DAP/reference	1.07508	0.129
42DAP/reference	1.06072	0.391
43DAP/reference	1.11622	0.25
47DAP/reference	0.95335	0.199
52DAP/reference	1.05639	0.575
57DAP/reference	1.16206	0.138

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99881	1
26DAP/20DAP	N/A	N/A
34DAP/26DAP	0.94114	0.945
51DAP/34DAP	0.7147
52DAP/51DAP	0.84271	1
53DAP/52DAP	0.69764	0.056
55DAP/53DAP	1.20437	1
57DAP/55DAP	0.50295
62DAP/57DAP	1.01456	1
68DAP/62DAP	0.94061	0.787
68DAP/14DAP	1.02841	0.762

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.07948	0.576

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.50133	0.058
Mature Green Tomato/Ripe Tomato	0.76598	0.051
Immature Eggplant/Mature Eggplant	1.77755	0.056
Ripe Pepper/Ripe Tomato	0.19424	0.224
Mature Eggplant/Ripe Tomato	0.11698	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.88117	0.883
1-1-2/M82	0.91484	0.958
12-2/M82	0.96234	0.955
12-4/M82	0.9605	1
1-3/M82	1.03174	0.479
2-1-1/M82	0.85404	0.465
2-1/M82	1.29037	1
2-6/M82	0.97647	1
3-2/M82	0.89721	1
4-1-1/M82	0.98921	1
4-1/M82	0.87243	0.867
4-3-2/M82	N/A	N/A
4-3/M82	1.03606	1
5-3/M82	1.01496	1
6-2/M82	1.10436	1
6-3/M82	0.95715	1
7-1/M82	1.02401	1
7-2/M82	0.88104	0.599
9-3-2/M82	0.78802	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.93644	1
IL2-6/WTpooled	1.5487	0.46
IL7-5/WTpooled	1.08522	1
IL7-3/WTpooled	0.90415	1
IL12-4/WTpooled	0.83635	0.71
IL1-4/WTpooled	1.0654	1
WT/WTpooled	0.93998	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	0.97435	1
DC3000/delta hrp 6h	1.03642	1
DC3000/delta hrp 12h	1.1281	1
DC3000/delta hrp 24h	0.97429	0.934

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
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	1.30286	1
Exp 36h	0.78893	0.661
Exp 60h	0.94678	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.63349	0.292
transgenic ySAMdc/azygous control (breaker)	2.28005	1
transgenic ySAMdc/azygous control (red)	1.45409	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96088	0.27

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.28294	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	11.7055	0.084
Manapal/WT (break)	0.89696	1
Manapal/WT (red)	2.5031	0.413