Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.14.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25458	0.602
27DAP/17DAP	1.13959	0.874
39DAP/27DAP	0.97126	0.749
41DAP/39DAP	1.13345	0.498
42DAP/41DAP	1.08426	1
43DAP/42DAP	1.21346	0.968
47DAP/43DAP	2.11219	0.195
52DAP/47DAP	0.74681	0.385
57DAP/52DAP	0.99027	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.43107	0.02
17DAP/reference	1.45659	0.012
27DAP/reference	1.25766	0.091
39DAP/reference	1.25086	0.111
41DAP/reference	1.65253	0.014
42DAP/reference	1.47813	0.001
43DAP/reference	1.0621	0.403
47DAP/reference	1.23978	0.019
52DAP/reference	1.15631	0.195
57DAP/reference	0.96982	0.479

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.31016	0.558
27DAP/17DAP	1.03908	0.951
39DAP/27DAP	0.87047	0.388
41DAP/39DAP	1.34262	0.294
42DAP/41DAP	0.87009	0.178
43DAP/42DAP	1.14984	0.351
47DAP/43DAP	1.10739	0.52
52DAP/47DAP	0.91002	0.498
57DAP/52DAP	0.98373	0.789
57DAP/7DAP	0.86338	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06171	0.894
17DAP/reference	1.07474	1
27DAP/reference	0.8176	0.01
39DAP/reference	0.89273	0.146
41DAP/reference	0.83454	0.153
42DAP/reference	0.82854	0.082
43DAP/reference	0.89278	0.241
47DAP/reference	0.94921	0.504
52DAP/reference	0.88408	0.15
57DAP/reference	1.17081	0.851

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.35282	0.04
17DAP/reference	1.52351	0.029
27DAP/reference	1.29702	0.041
39DAP/reference	1.15142	0.764
41DAP/reference	1.20649	0.112
42DAP/reference	1.22219	0.118
43DAP/reference	1.43789	0.036
47DAP/reference	1.27195	0.043
52DAP/reference	1.44404	0.007
57DAP/reference	1.84655	0.022

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80855	0.082
17DAP/reference	0.89402	0.398
27DAP/reference	0.92638	0.337
39DAP/reference	0.86825	0.101
41DAP/reference	0.87538	0.148
42DAP/reference	0.90992	0.445
43DAP/reference	0.80489	0.059
47DAP/reference	1.27616	0.019
52DAP/reference	1.55907	0.683
57DAP/reference	0.79903	0.025

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.70872
26DAP/20DAP	0.91813	1
34DAP/26DAP	1.24123	0.819
51DAP/34DAP	0.9753	0.824
52DAP/51DAP	1.07383	0.542
53DAP/52DAP	1.34621	0.086
55DAP/53DAP	1.03122	0.917
57DAP/55DAP	1.01108	0.97
62DAP/57DAP	1.08123	1
68DAP/62DAP	0.63419	0.166
68DAP/14DAP	0.87072	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.81246	0.065

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.17595	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	N/A	N/A
1-1-2/M82	1.42463
12-2/M82	N/A	N/A
12-4/M82	1.73169
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	1.32559
4-1-1/M82	N/A	N/A
4-1/M82	1.45999
4-3-2/M82	1.2772	1
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	1.40935	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.85716	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.00963	1
IL12-4/WTpooled	0.96071	1
IL1-4/WTpooled	0.91477	0.834
WT/WTpooled	1.05603	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	0.93431	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.27605	0.503
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.20876	1
DC3000/delta hrp 24h	1.69986	0.048

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	0.82285	0.245

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	1.1363	1
Var 0h	0.92216	1
Var 12h I row2-row1	0.87744	0.363
Var 12h NI row2-row1	1.00457	1
Var 36h I row2-row1	1.13432	1
Var 36h NI row2-row1	1.09006	1
Var 60h I row2-row1	0.91892	0.832
Var 60h NI row2-row1	1.11231	0.904
Time course 0hI-0hNI	0.97534	0.9
Time course 12hI-12hNI	0.98851	0.964
Time course 36hI-36hNI	0.8158	0.025
Time course 60hI-60hNI	0.56657	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	1.0807	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.88445	0.052

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.26477	1
Manapal/WT (red)	1.95155	0.222