Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.8.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.099	0.77
27DAP/17DAP	1.1375	1
39DAP/27DAP	0.74998	0.449
41DAP/39DAP	0.86709	0.503
42DAP/41DAP	1.36141	0.825
43DAP/42DAP	0.95861	0.898
47DAP/43DAP	1.06738	0.715
52DAP/47DAP	0.88029	0.673
57DAP/52DAP	0.98886	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.49156	0.03
17DAP/reference	1.27138	0.631
27DAP/reference	1.44137	0.009
39DAP/reference	1.68798	0.017
41DAP/reference	1.81015	0.014
42DAP/reference	1.81452	0.001
43DAP/reference	1.28485	0.133
47DAP/reference	1.63532	0.001
52DAP/reference	1.42268	0.069
57DAP/reference	1.1514	0.136

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.24185	0.192
27DAP/17DAP	0.85131	0.508
39DAP/27DAP	0.89907	0.35
41DAP/39DAP	1.15814	0.799
42DAP/41DAP	1.19485	0.301
43DAP/42DAP	1.01019	0.83
47DAP/43DAP	0.9484	0.757
52DAP/47DAP	1.17864	0.656
57DAP/52DAP	1.41125	0.243
57DAP/7DAP	0.88003	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17678	0.65
17DAP/reference	0.98289	0.518
27DAP/reference	1.05051	0.974
39DAP/reference	1.17235	0.198
41DAP/reference	1.17973	0.363
42DAP/reference	1.04732	0.889
43DAP/reference	1.18899	0.483
47DAP/reference	1.04945	1
52DAP/reference	1.34114	0.048
57DAP/reference	1.19341	0.108

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.33215	0.279
17DAP/reference	1.51832	0.484
27DAP/reference	1.54001	0.068
39DAP/reference	1.35751	0.106
41DAP/reference	1.10412	0.372
42DAP/reference	1.09346	0.759
43DAP/reference	0.97291	0.67
47DAP/reference	1.44678	0.028
52DAP/reference	1.38261	0.098
57DAP/reference	1.29295	0.286

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21971	0.056
17DAP/reference	0.78661	0.255
27DAP/reference	1.85061
39DAP/reference	1.08983	0.752
41DAP/reference	1.82693	0.034
42DAP/reference	1.56164	0.052
43DAP/reference	1.07979	0.894
47DAP/reference	1.49412	0.057
52DAP/reference	1.77476	0.054
57DAP/reference	1.50287	0.056

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	2.06759	0.163
26DAP/20DAP	1.02287	1
34DAP/26DAP	1.31885	0.819
51DAP/34DAP	0.89052	0.598
52DAP/51DAP	1.72988	0.056
53DAP/52DAP	N/A	N/A
55DAP/53DAP	1.4218	0.039
57DAP/55DAP	0.68572	0.305
62DAP/57DAP	0.98942	0.994
68DAP/62DAP	0.89881	0.787
68DAP/14DAP	1.75446	0.384

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.90407	0.358

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	1.10014
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	1.22818
IL2-6/WTpooled	1.1048	0.584
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.98342	1
IL12-4/WTpooled	0.69666	0.566
IL1-4/WTpooled	1.0313	1
WT/WTpooled	0.8697	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	0.93356	0.975

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	1.06378	1
DC3000/delta hrp 24h	0.97227	0.897

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.97333	0.841
DC3000 delta B/DC3000 delta AB	1.83952	0.215

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	1.04119	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99543	1
Var 0h	0.81466	0.933
Var 12h I row2-row1	0.84772	0.338
Var 12h NI row2-row1	1.03009	1
Var 36h I row2-row1	1.05729	0.601
Var 36h NI row2-row1	1.14688	1
Var 60h I row2-row1	0.91113	0.285
Var 60h NI row2-row1	1.08129	0.904
Time course 0hI-0hNI	0.95952	0.738
Time course 12hI-12hNI	0.99007	0.972
Time course 36hI-36hNI	0.91055	0.119
Time course 60hI-60hNI	0.57861	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)	1.28071	0.511
transgenic ySAMdc/azygous control (breaker)	0.89175	0.49
transgenic ySAMdc/azygous control (red)	0.90537	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.16057	0.086

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.84718	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.88567	1
Manapal/WT (break)	1.11361	1
Manapal/WT (red)	1.12341	1