Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.9.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87848	0.511
27DAP/17DAP	0.74709	0.373
39DAP/27DAP	2.83942	0.034
41DAP/39DAP	1.1093	0.765
42DAP/41DAP	0.66217	0.774
43DAP/42DAP	0.75597	0.456
47DAP/43DAP	0.82359	0.449
52DAP/47DAP	1.66677	0.445
57DAP/52DAP	0.88017	0.839

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30612	0.132
17DAP/reference	0.87989	0.026
27DAP/reference	0.92815	0.265
39DAP/reference	0.92681	0.194
41DAP/reference	0.96113	0.267
42DAP/reference	0.94542	0.115
43DAP/reference	0.95373	0.222
47DAP/reference	0.86625	0.003
52DAP/reference	0.83519	0.031
57DAP/reference	0.96885	0.415

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.57898	0.054
27DAP/17DAP	1.10493	0.771
39DAP/27DAP	1.18995	0.388
41DAP/39DAP	0.91681	0.434
42DAP/41DAP	1.04814	0.635
43DAP/42DAP	1.13641	0.038
47DAP/43DAP	0.86101	0.141
52DAP/47DAP	0.85098	0.284
57DAP/52DAP	0.9749	0.673
57DAP/7DAP	0.68714	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.51398	0.029
17DAP/reference	0.96183	0.389
27DAP/reference	0.87402	0.037
39DAP/reference	0.95234	0.109
41DAP/reference	0.99533	0.646
42DAP/reference	0.93376	0.211
43DAP/reference	0.93783	0.241
47DAP/reference	1.42706	0.187
52DAP/reference	0.84031	0.013
57DAP/reference	0.85404	0.052

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25363	0.056
17DAP/reference	1.14037	0.176
27DAP/reference	1.22935	0.265
39DAP/reference	1.09816	0.377
41DAP/reference	1.32342	0.025
42DAP/reference	1.13653	0.118
43DAP/reference	1.09828	0.509
47DAP/reference	1.16058	0.041
52DAP/reference	1.13873	0.085
57DAP/reference	1.07926	0.672

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.38683	0.015
17DAP/reference	1.16003	0.376
27DAP/reference	0.93679	0.27
39DAP/reference	0.9994	0.819
41DAP/reference	1.0334	1
42DAP/reference	0.95362	0.552
43DAP/reference	0.91322	0.12
47DAP/reference	0.91184	0.109
52DAP/reference	0.84232	0.082
57DAP/reference	0.89967	0.141

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03009	1
26DAP/20DAP	1.16115	0.608
34DAP/26DAP	0.94218	0.927
51DAP/34DAP	1.02011	0.957
52DAP/51DAP	1.05446	0.758
53DAP/52DAP	1.03906	0.882
55DAP/53DAP	1.1956	0.468
57DAP/55DAP	1.11954	0.682
62DAP/57DAP	1.14282	0.678
68DAP/62DAP	0.8652	0.406
68DAP/14DAP	1.08707	0.676

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.22187	0.151

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.78273	0.236
Mature Green Tomato/Ripe Tomato	2.17586	0.02
Immature Eggplant/Mature Eggplant	1.21816	0.15
Ripe Pepper/Ripe Tomato	0.72832	0.224
Mature Eggplant/Ripe Tomato	0.64167	1

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	0.77967
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	1.00112	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.44485	0.792
IL7-3/WTpooled	1.10962
IL12-4/WTpooled	0.84473	0.71
IL1-4/WTpooled	1.05062	1
WT/WTpooled	1.04222	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	1.32542	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97095	1
DC3000/delta hrp 6h	0.95033	0.95
DC3000/delta hrp 12h	0.88326	1
DC3000/delta hrp 24h	2.6201	0.025

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.61249	0.034
DC3000 delta B/DC3000 delta AB	1.39316	0.091

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.19678	1
Exp 36h	1.5443	0.409
Exp 60h	1.48718	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98446	1
Var 0h	1.07454	0.98
Var 12h I row2-row1	1.10591	0.544
Var 12h NI row2-row1	0.81919	0.494
Var 36h I row2-row1	0.84178	1
Var 36h NI row2-row1	1.00621	1
Var 60h I row2-row1	0.92519	0.306
Var 60h NI row2-row1	0.87663	0.335
Time course 0hI-0hNI	0.92796	0.401
Time course 12hI-12hNI	1.08504	0.137
Time course 36hI-36hNI	1.19388	0.01
Time course 60hI-60hNI	0.63972	0.006

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)	1.01047	0.921
transgenic ySAMdc/azygous control (breaker)	0.75078	0.131
transgenic ySAMdc/azygous control (red)	0.94603	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03747	0.185

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.99081	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.11261	1
Manapal/WT (break)	0.87358	1
Manapal/WT (red)	1.19854	0.15