Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.12.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.836	0.347
27DAP/17DAP	0.97239	0.869
39DAP/27DAP	1.22531	0.382
41DAP/39DAP	1.34512	0.67
42DAP/41DAP	0.94395	1
43DAP/42DAP	1.05328	1
47DAP/43DAP	0.95011	0.736
52DAP/47DAP	1.20346	0.605
57DAP/52DAP	0.9699	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0099	0.771
17DAP/reference	1.11927	0.565
27DAP/reference	1.00719	0.923
39DAP/reference	1.35216	0.044
41DAP/reference	1.54134	0.03
42DAP/reference	1.09786	0.383
43DAP/reference	1.30882	0.175
47DAP/reference	1.21414	0.052
52DAP/reference	0.98243	0.515
57DAP/reference	0.85189	0.138

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06472	0.65
27DAP/17DAP	N/A	N/A
39DAP/27DAP	N/A	N/A
41DAP/39DAP	N/A	N/A
42DAP/41DAP	0.48791	0.187
43DAP/42DAP	1.48668
47DAP/43DAP	1.01823	0.997
52DAP/47DAP	2.09538	0.148
57DAP/52DAP	0.62489	0.082
57DAP/7DAP	1.18488	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85691	0.157
17DAP/reference	0.63717	0.013
27DAP/reference	1.06005	0.453
39DAP/reference	0.79923	0.015
41DAP/reference	0.84801	0.076
42DAP/reference	0.84977	0.046
43DAP/reference	0.83873	0.044
47DAP/reference	0.92162	0.383
52DAP/reference	1.24797	0.247
57DAP/reference	0.98812	0.549

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.51803	0.16
17DAP/reference	1.11551	0.25
27DAP/reference	1.6268	0.455
39DAP/reference	1.46224	0.112
41DAP/reference	1.09381	0.814
42DAP/reference	1.13685	0.317
43DAP/reference	1.15226	0.407
47DAP/reference	1.18613	0.046
52DAP/reference	1.28349	0.007
57DAP/reference	1.54204	0.097

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9736	0.526
17DAP/reference	1.10914	0.394
27DAP/reference	0.81495	0.126
39DAP/reference	1.00932	0.819
41DAP/reference	1.01095	0.826
42DAP/reference	0.89608	0.172
43DAP/reference	0.72174	0.041
47DAP/reference	1.10662	0.48
52DAP/reference	0.89645	0.31
57DAP/reference	1.04169	0.842

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.61427	1
26DAP/20DAP	1.25094	0.916
34DAP/26DAP	1.4804	1
51DAP/34DAP	13.958	0.445
52DAP/51DAP	1.06013	1
53DAP/52DAP	1.03268	0.882
55DAP/53DAP	1.15124
57DAP/55DAP	1.93986	0.854
62DAP/57DAP	1.10055	1
68DAP/62DAP	1.0448	1
68DAP/14DAP	0.7901	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.11526	0.774

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.87651	0.017
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	1.13074	0.877
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.36369	1
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	0.902	0.467
3-2/M82	1.03151
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.00509	1
4-3/M82	N/A	N/A
5-3/M82	0.90848	0.642
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.8431	0.375
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.16456	0.493
IL2-6/WTpooled	0.90917	1
IL7-5/WTpooled	0.98611
IL7-3/WTpooled	0.95222	1
IL12-4/WTpooled	0.93449	1
IL1-4/WTpooled	1.00881	1
WT/WTpooled	1.03522	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	0.98445	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.81116	1
DC3000/delta hrp 24h	1.14973	0.595

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	1.08708	0.98
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)	0.77961	0.291
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	0.97123	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01559	0.766

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.63681	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.35792	0.307
Manapal/WT (break)	1.00965	1
Manapal/WT (red)	0.91174	0.607