Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.17.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10058	0.932
27DAP/17DAP	0.65059	0.257
39DAP/27DAP	0.98546	0.769
41DAP/39DAP	0.82364	0.358
42DAP/41DAP	1.14509	0.971
43DAP/42DAP	1.04289	0.937
47DAP/43DAP	1.12281	0.68
52DAP/47DAP	1.29299	0.67
57DAP/52DAP	1.19273	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9776	0.513
17DAP/reference	0.94656	0.536
27DAP/reference	0.95636	0.642
39DAP/reference	0.94172	0.565
41DAP/reference	0.7776	0.009
42DAP/reference	0.85002	0.059
43DAP/reference	0.88026	0.037
47DAP/reference	0.844	0.021
52DAP/reference	1.05062	1
57DAP/reference	1.1177	0.186

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15345	0.797
27DAP/17DAP	0.95448	0.724
39DAP/27DAP	1.13197	0.718
41DAP/39DAP	1.45711	0.514
42DAP/41DAP	0.97586	0.659
43DAP/42DAP	1.04028	1
47DAP/43DAP	0.9971	0.998
52DAP/47DAP	0.96831	0.893
57DAP/52DAP	1.11865	0.695
57DAP/7DAP	0.92922	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98185	0.613
17DAP/reference	1.08692	0.627
27DAP/reference	1.01663	1
39DAP/reference	1.2033	0.042
41DAP/reference	1.05308	0.767
42DAP/reference	1.23662	0.1
43DAP/reference	1.22263	0.344
47DAP/reference	0.98602	0.671
52DAP/reference	0.89705	0.213
57DAP/reference	1.00263	0.589

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78253	0.041
17DAP/reference	0.76126	0.006
27DAP/reference	0.82086	0.09
39DAP/reference	0.91698	0.214
41DAP/reference	0.79973	0.042
42DAP/reference	0.93354	0.237
43DAP/reference	0.9071	0.307
47DAP/reference	0.96451	0.41
52DAP/reference	0.84638	0.008
57DAP/reference	0.8724	0.092

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83464	0.082
17DAP/reference	0.96693	0.571
27DAP/reference	1.21355	0.1
39DAP/reference	1.04258	0.752
41DAP/reference	0.96585	0.512
42DAP/reference	0.91571	0.287
43DAP/reference	0.9161	0.226
47DAP/reference	0.92808	0.145
52DAP/reference	1.31952	0.542
57DAP/reference	0.87227	0.136

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.1278	0.966
26DAP/20DAP	0.68864	0.512
34DAP/26DAP	1.52278	0.819
51DAP/34DAP	N/A	N/A
52DAP/51DAP	1.14877	0.733
53DAP/52DAP	1.24678	0.552
55DAP/53DAP	1.3794	0.693
57DAP/55DAP	0.91507	0.754
62DAP/57DAP	0.82676	0.466
68DAP/62DAP	1.39157	0.035
68DAP/14DAP	1.40089	0.211

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.82352	0.285

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	N/A	N/A
Mature Eggplant/Ripe Tomato	0.06819	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.11876	0.742
1-1-2/M82	1.09285	1
12-2/M82	0.89758	0.955
12-4/M82	0.71146	0.619
1-3/M82	2.3077	0.26
2-1-1/M82	1.01711	1
2-1/M82	0.68087	0.519
2-6/M82	1.65751	0.329
3-2/M82	1.32546
4-1-1/M82	1.46714	1
4-1/M82	0.93605
4-3-2/M82	1.55263
4-3/M82	2.47075	0.268
5-3/M82	0.52753	0.419
6-2/M82	0.26695	0.481
6-3/M82	1.04908	1
7-1/M82	0.95079
7-2/M82	1.0863	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.23705	0.737
IL1-4/WTpooled	0.92663
WT/WTpooled	N/A	N/A

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	1.24663	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.17757	0.914
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.13732	1
DC3000/delta hrp 24h	1.08413	0.728

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.19784	1
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	0.95639	1
Var 0h	0.54171	0.146
Var 12h I row2-row1	1.06021	1
Var 12h NI row2-row1	0.88001	0.394
Var 36h I row2-row1	1.11897	1
Var 36h NI row2-row1	0.99331	1
Var 60h I row2-row1	0.81003	0.292
Var 60h NI row2-row1	0.87776	0.306
Time course 0hI-0hNI	1.24096	0.719
Time course 12hI-12hNI	1.37453	0.096
Time course 36hI-36hNI	1.89254	0.008
Time course 60hI-60hNI	1.62363	0.037

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)	1.09539	1
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.99026	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.10237	0.093
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.18182	0.181