Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.20.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83548	0.297
27DAP/17DAP	1.21458	0.809
39DAP/27DAP	1.04017	0.769
41DAP/39DAP	1.48761	0.483
42DAP/41DAP	0.87137	1
43DAP/42DAP	0.93547	0.914
47DAP/43DAP	0.80218	0.407
52DAP/47DAP	0.97896	0.898
57DAP/52DAP	1.16477	0.962

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97237	0.526
17DAP/reference	1.02706	0.813
27DAP/reference	0.99993	0.904
39DAP/reference	1.04097	0.089
41DAP/reference	1.00388	0.91
42DAP/reference	0.98975	0.484
43DAP/reference	0.98401	0.745
47DAP/reference	1.00528	1
52DAP/reference	0.76354	0.016
57DAP/reference	0.881	0.047

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88325	0.112
27DAP/17DAP	0.96129	0.854
39DAP/27DAP	1.11583	0.337
41DAP/39DAP	1.06417	0.921
42DAP/41DAP	0.95695	0.637
43DAP/42DAP	1.05949	0.382
47DAP/43DAP	1.02511	0.892
52DAP/47DAP	0.99069	0.935
57DAP/52DAP	0.97538	0.709
57DAP/7DAP	1.04014	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96424	0.495
17DAP/reference	0.93062	0.192
27DAP/reference	1.02213	1
39DAP/reference	1.31536	0.018
41DAP/reference	1.33298	0.018
42DAP/reference	1.37664	0.03
43DAP/reference	1.42659	0.007
47DAP/reference	1.02956	1
52DAP/reference	1.14036	0.266
57DAP/reference	1.42529	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99697	0.93
17DAP/reference	0.97918	0.499
27DAP/reference	0.91314	0.188
39DAP/reference	0.91444	0.257
41DAP/reference	0.93119	0.076
42DAP/reference	0.87633	0.081
43DAP/reference	0.93182	0.307
47DAP/reference	1.01526	0.867
52DAP/reference	1.02688	0.702
57DAP/reference	1.03065	0.626

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85419	0.048
17DAP/reference	0.90301	0.243
27DAP/reference	0.92692	0.243
39DAP/reference	1.07431	0.33
41DAP/reference	0.83313	0.035
42DAP/reference	0.95088	0.552
43DAP/reference	0.90417	0.216
47DAP/reference	0.94788	0.371
52DAP/reference	1.33938	0.103
57DAP/reference	0.84635	0.152

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.93289	0.841
26DAP/20DAP	0.87291	0.512
34DAP/26DAP	1.09555	0.819
51DAP/34DAP	1.06213	0.402
52DAP/51DAP	1.06603	0.616
53DAP/52DAP	1.04655	0.882
55DAP/53DAP	0.96996	0.775
57DAP/55DAP	1.31134	0.682
62DAP/57DAP	1.12095	0.515
68DAP/62DAP	1.00262	0.939
68DAP/14DAP	0.96131	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.08988	0.527

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.12297	0.049
Mature Green Tomato/Ripe Tomato	0.50029	0.023
Immature Eggplant/Mature Eggplant	7.34064	0.05
Ripe Pepper/Ripe Tomato	1.8348	1
Mature Eggplant/Ripe Tomato	1.02693	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.19104	0.591
1-1-2/M82	1.02341	1
12-2/M82	1.1638	1
12-4/M82	0.95404	1
1-3/M82	1.63244	0.479
2-1-1/M82	1.10346	0.422
2-1/M82	1.17925	0.345
2-6/M82	1.09894	0.594
3-2/M82	0.90104	0.455
4-1-1/M82	1.12913	1
4-1/M82	1.00653	1
4-3-2/M82	1.29041	0.253
4-3/M82	1.19846	1
5-3/M82	0.89624	0.642
6-2/M82	1.18594	1
6-3/M82	1.28323	1
7-1/M82	0.90787	0.803
7-2/M82	1.41893	0.385
9-3-2/M82	1.52753	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.90821
IL2-6/WTpooled	0.58125
IL7-5/WTpooled	1.22655
IL7-3/WTpooled	0.96511
IL12-4/WTpooled	1.66143	0.538
IL1-4/WTpooled	0.89649	0.562
WT/WTpooled	0.86289	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	1.06803

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04789	0.921
DC3000/delta hrp 6h	1.15077	1
DC3000/delta hrp 12h	1.132	1
DC3000/delta hrp 24h	0.60771	0.323

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.39379	0.042
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	1.12295	1
Exp 36h	2.83921	0.693
Exp 60h	1.89511	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98276	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.05091	0.613
Var 12h NI row2-row1	1.69379	0.649
Var 36h I row2-row1	1.28022	1
Var 36h NI row2-row1	0.79552	0.61
Var 60h I row2-row1	0.61234	0.285
Var 60h NI row2-row1	0.65268	0.301
Time course 0hI-0hNI	1.08184	0.63
Time course 12hI-12hNI	1.63203	0.062
Time course 36hI-36hNI	4.8511	0.004
Time course 60hI-60hNI	17.0738	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)	0.94673	0.662
transgenic ySAMdc/azygous control (breaker)	0.41114	0.132
transgenic ySAMdc/azygous control (red)	0.84471	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96016	0.313

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.29224	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	5.69826	0.093
Manapal/WT (break)	3.70817	0.14
Manapal/WT (red)	3.83382	0.164