Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.3.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00702	0.823
27DAP/17DAP	1.08813	1
39DAP/27DAP	0.83961	0.529
41DAP/39DAP	1.05868	1
42DAP/41DAP	1.61858	0.672
43DAP/42DAP	1.01449	0.937
47DAP/43DAP	0.88238	0.613
52DAP/47DAP	1.02706	0.859
57DAP/52DAP	1.16049	0.735

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7264	0.087
17DAP/reference	0.57841	0.007
27DAP/reference	0.70963	0.013
39DAP/reference	0.57046	0.01
41DAP/reference	0.57918	0.012
42DAP/reference	0.6913	0.001
43DAP/reference	0.65665
47DAP/reference	0.68888	0.008
52DAP/reference	1.16589	0.548
57DAP/reference	0.79297

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04691	1
27DAP/17DAP	1.2004	0.514
39DAP/27DAP	0.88737	0.322
41DAP/39DAP	1.22234	0.197
42DAP/41DAP	0.8301	0.109
43DAP/42DAP	1.20686	0.446
47DAP/43DAP	1.10236	0.749
52DAP/47DAP	0.9818	0.913
57DAP/52DAP	0.97484	0.756
57DAP/7DAP	1.39362	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29511	0.085
17DAP/reference	1.63063	0.012
27DAP/reference	1.38459	0.012
39DAP/reference	1.21425	0.351
41DAP/reference	1.44842	0.021
42DAP/reference	1.28578	0.016
43DAP/reference	1.74356	0.012
47DAP/reference	1.34738	0.124
52DAP/reference	1.54015	0.007
57DAP/reference	1.50987	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.70263	0.015
17DAP/reference	0.56724	0.003
27DAP/reference	0.8682	0.15
39DAP/reference	1.04755	1
41DAP/reference	1.13887	0.188
42DAP/reference	0.92437	0.046
43DAP/reference	0.78772	0.17
47DAP/reference	0.80696	0.032
52DAP/reference	0.91511	0.131
57DAP/reference	0.59706	0.004

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20715	0.386
17DAP/reference	1.00632	0.647
27DAP/reference	1.58592	0.031
39DAP/reference	1.38233	0.057
41DAP/reference	1.29364	0.205
42DAP/reference	1.59071	0.029
43DAP/reference	1.41537	0.036
47DAP/reference	0.94971	0.409
52DAP/reference	1.10867	0.549
57DAP/reference	2.08979	0.013

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.21095	0.298
26DAP/20DAP	1.13102	0.635
34DAP/26DAP	1.03801	1
51DAP/34DAP	0.78851	0.428
52DAP/51DAP	0.98804	1
53DAP/52DAP	1.5473	0.296
55DAP/53DAP	0.99845	0.82
57DAP/55DAP	0.6657	0.049
62DAP/57DAP	1.37818	0.047
68DAP/62DAP	3.60349	0.013
68DAP/14DAP	5.35444	0.016

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.06164	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.64021	0.058
Mature Green Tomato/Ripe Tomato	0.72861	0.018
Immature Eggplant/Mature Eggplant	0.48044
Ripe Pepper/Ripe Tomato	0.66612
Mature Eggplant/Ripe Tomato	4.44472

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	2.2467
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	0.79737	0.247
IL2-6/WTpooled	0.85643	0.383
IL7-5/WTpooled	0.9485	1
IL7-3/WTpooled	1.14982	1
IL12-4/WTpooled	1.0656	0.737
IL1-4/WTpooled	0.93066	0.699
WT/WTpooled	0.97207	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	1.05642	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.86844	0.599
DC3000/delta hrp 6h	0.90978	0.95
DC3000/delta hrp 12h	0.90378	1
DC3000/delta hrp 24h	0.68127	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.16578	0.556
DC3000 delta B/DC3000 delta AB	0.67551	0.172

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.18981	1
Exp 36h	0.78133	0.749
Exp 60h	0.81585	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02364
Var 0h	0.61888	0.374
Var 12h I row2-row1	0.89503	0.705
Var 12h NI row2-row1	1.10225	1
Var 36h I row2-row1	1.07665	0.309
Var 36h NI row2-row1	0.86068	0.706
Var 60h I row2-row1	1.1895	0.562
Var 60h NI row2-row1	0.86672	0.516
Time course 0hI-0hNI	0.91925	0.254
Time course 12hI-12hNI	1.01101	0.854
Time course 36hI-36hNI	1.17743	0.28
Time course 60hI-60hNI	1.32955	0.069

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)	1.02062	0.921
transgenic ySAMdc/azygous control (breaker)	1.10535	1
transgenic ySAMdc/azygous control (red)	1.06013	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0884	0.066

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.78662	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.00917	1
Manapal/WT (break)	0.84503	0.333
Manapal/WT (red)	N/A	N/A