Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.1.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.99311	0.315
27DAP/17DAP	1.03831	0.926
39DAP/27DAP	1.03929	1
41DAP/39DAP	1.2098	0.212
42DAP/41DAP	1.55729	0.745
43DAP/42DAP	1.40344	1
47DAP/43DAP	1.09011	0.868
52DAP/47DAP	1.44372	0.652
57DAP/52DAP	0.99266	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03508
17DAP/reference	N/A	N/A
27DAP/reference	1.66984
39DAP/reference	N/A	N/A
41DAP/reference	1.17378
42DAP/reference	1.115	0.931
43DAP/reference	0.48567
47DAP/reference	1.78041	0.001
52DAP/reference	0.54712
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.67568	0.065
27DAP/17DAP	N/A	N/A
39DAP/27DAP	0.78102
41DAP/39DAP	N/A	N/A
42DAP/41DAP	1.00217	0.87
43DAP/42DAP	N/A	N/A
47DAP/43DAP	1.84345	0.406
52DAP/47DAP	N/A	N/A
57DAP/52DAP	1.02
57DAP/7DAP	1.93269

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05584	0.664
17DAP/reference	0.99944	1
27DAP/reference	1.06405	0.049
39DAP/reference	1.04953	0.237
41DAP/reference	1.69159	0.28
42DAP/reference	1.1063	0.308
43DAP/reference	1.02376
47DAP/reference	1.05413
52DAP/reference	1.03447	0.732
57DAP/reference	1.05661	0.308

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1538
17DAP/reference	N/A	N/A
27DAP/reference	N/A	N/A
39DAP/reference	N/A	N/A
41DAP/reference	1.46691	0.382
42DAP/reference	N/A	N/A
43DAP/reference	1.19218	0.38
47DAP/reference	1.36555	0.008
52DAP/reference	0.7762	0.131
57DAP/reference	N/A	N/A

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02382	0.532
17DAP/reference	1.02996	0.685
27DAP/reference	1.02378	0.695
39DAP/reference	1.14776	0.034
41DAP/reference	1.03617	0.796
42DAP/reference	1.03956	0.566
43DAP/reference	1.07831	0.388
47DAP/reference	1.12245
52DAP/reference	1.07034	0.623
57DAP/reference	1.52355	0.394

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.7526
26DAP/20DAP	1.52177	0.66
34DAP/26DAP	1.30115
51DAP/34DAP	N/A	N/A
52DAP/51DAP	N/A	N/A
53DAP/52DAP	1.14663	1
55DAP/53DAP	N/A	N/A
57DAP/55DAP	3.29431
62DAP/57DAP	N/A	N/A
68DAP/62DAP	N/A	N/A
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	N/A	N/A

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	N/A	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	0.5503	0.247
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.86172
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.87052	0.415
WT/WTpooled	1.31639	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	N/A	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	N/A	N/A

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	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

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