Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.14.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.63551	0.029
27DAP/17DAP	0.73309	0.209
39DAP/27DAP	0.96602	0.7
41DAP/39DAP	0.80814	0.27
42DAP/41DAP	0.69683	0.397
43DAP/42DAP	1.16882	0.885
47DAP/43DAP	1.07535	0.926
52DAP/47DAP	0.93149	0.651
57DAP/52DAP	1.39253	0.955

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.59142	0.019
17DAP/reference	0.71088	0.031
27DAP/reference	0.80798	0.109
39DAP/reference	0.7259	0.029
41DAP/reference	0.59078	0.008
42DAP/reference	0.79079	0.01
43DAP/reference	0.66725	0.016
47DAP/reference	0.64628	0.001
52DAP/reference	0.70279	0.071
57DAP/reference	0.76935	0.019

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.56632	0.065
27DAP/17DAP	1.69162	0.032
39DAP/27DAP	0.40442	0.028
41DAP/39DAP	0.99665	1
42DAP/41DAP	0.82342	0.197
43DAP/42DAP	0.93399	0.641
47DAP/43DAP	0.93678	0.815
52DAP/47DAP	1.3424	0.696
57DAP/52DAP	1.03564	0.926
57DAP/7DAP	0.51133	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11463	0.268
17DAP/reference	0.94058	0.124
27DAP/reference	0.7433	0.01
39DAP/reference	0.56653	0.011
41DAP/reference	0.49606	0.011
42DAP/reference	0.61109	0.011
43DAP/reference	0.48844	0.01
47DAP/reference	0.55536	0.03
52DAP/reference	0.4284	0.011
57DAP/reference	0.47528	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19196	0.397
17DAP/reference	0.77262	0.009
27DAP/reference	0.97687	0.537
39DAP/reference	0.64684	0.095
41DAP/reference	1.10883	0.735
42DAP/reference	0.82694	0.135
43DAP/reference	0.59477	0.002
47DAP/reference	0.57455	0.01
52DAP/reference	0.75111	0.111
57DAP/reference	0.91153	0.278

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.87342	0.018
17DAP/reference	1.27371	0.182
27DAP/reference	1.23142	0.125
39DAP/reference	0.84101	0.037
41DAP/reference	0.81766	0.027
42DAP/reference	0.62683	0.02
43DAP/reference	0.67508	0.03
47DAP/reference	0.7939	0.057
52DAP/reference	0.66909	0.062
57DAP/reference	0.93444	0.353

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07747	0.966
26DAP/20DAP	0.69831	0.317
34DAP/26DAP	1.04797	1
51DAP/34DAP	1.78084	0.033
52DAP/51DAP	1.17765
53DAP/52DAP	0.72543	0.259
55DAP/53DAP	0.92558	0.091
57DAP/55DAP	1.434	0.492
62DAP/57DAP	1.06639	1
68DAP/62DAP	0.86305	0.7
68DAP/14DAP	1.36632	0.558

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.88252	0.186

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.13977	0.176
Mature Green Tomato/Ripe Tomato	6.99247	0.015
Immature Eggplant/Mature Eggplant	0.29958	0.063
Ripe Pepper/Ripe Tomato	4.63043	0.256
Mature Eggplant/Ripe Tomato	3.66071	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02496
1-1-2/M82	1.18368
12-2/M82	0.92209
12-4/M82	0.88686
1-3/M82	N/A	N/A
2-1-1/M82	0.66777
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	1.36076	1
5-3/M82	0.95376	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.9099
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.78645	0.321
IL2-6/WTpooled	1.09319	0.659
IL7-5/WTpooled	2.50663	0.75
IL7-3/WTpooled	1.02152	1
IL12-4/WTpooled	1.1364	0.532
IL1-4/WTpooled	1.19364	1
WT/WTpooled	1.01225	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	0.64799	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95048	1
DC3000/delta hrp 6h	1.17994	0.582
DC3000/delta hrp 12h	0.75303	1
DC3000/delta hrp 24h	1.26881	0.383

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.08737	0.313
DC3000 delta B/DC3000 delta AB	0.93794	0.575

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.05777	1
Exp 36h	0.66563	0.41
Exp 60h	0.68153	0.386

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98836	1
Var 0h	1.00788	1
Var 12h I row2-row1	0.75086	0.363
Var 12h NI row2-row1	0.84096	0.327
Var 36h I row2-row1	1.15296	0.908
Var 36h NI row2-row1	1.56207	1
Var 60h I row2-row1	0.95594	0.374
Var 60h NI row2-row1	1.03775	1
Time course 0hI-0hNI	0.98245	0.95
Time course 12hI-12hNI	0.90803	0.451
Time course 36hI-36hNI	0.82356	0.029
Time course 60hI-60hNI	0.13539	0.005

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)	1.01898	0.748
transgenic ySAMdc/azygous control (breaker)	1.27161	1
transgenic ySAMdc/azygous control (red)	1.71611	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.82764	0.058

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.07886	0.229

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	4.70816	0.084
Manapal/WT (break)	3.62725	0.13
Manapal/WT (red)	3.78033	0.134