Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.3.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.77728	0.249
27DAP/17DAP	1.57626	0.677
39DAP/27DAP	0.88194	0.512
41DAP/39DAP	1.06218	0.701
42DAP/41DAP	0.57636	0.262
43DAP/42DAP	0.93982	0.877
47DAP/43DAP	0.81551	0.576
52DAP/47DAP	2.7766	0.092
57DAP/52DAP	1.12888	0.826

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10348	0.846
17DAP/reference	1.11055	0.858
27DAP/reference	0.75121	0.147
39DAP/reference	0.8173	0.213
41DAP/reference	0.64495	0.039
42DAP/reference	1.02291	0.665
43DAP/reference	0.68243	0.037
47DAP/reference	0.85879	0.137
52DAP/reference	1.10827	0.025
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09636	0.847
27DAP/17DAP	0.87774	0.58
39DAP/27DAP	1.01507	0.932
41DAP/39DAP	1.48722	0.284
42DAP/41DAP	0.8179	0.174
43DAP/42DAP	1.38326	0.134
47DAP/43DAP	1.1853	0.508
52DAP/47DAP	2.23973	0.044
57DAP/52DAP	1.55517	0.105
57DAP/7DAP	1.2292	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90413	0.104
17DAP/reference	0.9581	0.253
27DAP/reference	0.94601	0.303
39DAP/reference	0.87144	0.027
41DAP/reference	0.86908	0.036
42DAP/reference	0.84749	0.106
43DAP/reference	0.82169	0.04
47DAP/reference	1.00258	1
52DAP/reference	0.74517	0.011
57DAP/reference	0.8394	0.069

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0186	1
17DAP/reference	1.03071	0.92
27DAP/reference	1.20881	0.111
39DAP/reference	1.25107	0.047
41DAP/reference	1.1785	0.277
42DAP/reference	1.02254	1
43DAP/reference	0.87499	0.191
47DAP/reference	1.01699	0.59
52DAP/reference	1.14815	0.021
57DAP/reference	1.13341	0.449

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17153	0.167
17DAP/reference	0.95638	0.579
27DAP/reference	1.00192	0.805
39DAP/reference	0.99847	0.889
41DAP/reference	0.9132	0.237
42DAP/reference	0.95878	0.552
43DAP/reference	0.91381	0.216
47DAP/reference	0.99146	0.646
52DAP/reference	1.26446	0.583
57DAP/reference	1.26435	0.062

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00035	1
26DAP/20DAP	0.81808	0.512
34DAP/26DAP	1.14704	1
51DAP/34DAP	1.16391	0.496
52DAP/51DAP	1.98033	0.103
53DAP/52DAP	0.39648	0.049
55DAP/53DAP	0.68663	0.085
57DAP/55DAP	0.85465	0.596
62DAP/57DAP	4.74318
68DAP/62DAP	0.56769	0.641
68DAP/14DAP	1.30371

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.40841	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.48576	0.164
Mature Green Tomato/Ripe Tomato	0.31327	0.019
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.74685	0.293
Mature Eggplant/Ripe Tomato	0.29591	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.31227
1-1-2/M82	0.99341
12-2/M82	2.48767
12-4/M82	0.9938	1
1-3/M82	1.44421
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	2.55258
5-3/M82	0.52831
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	1.05019	1
IL2-6/WTpooled	1.14458	0.419
IL7-5/WTpooled	0.61535	1
IL7-3/WTpooled	1.02773	1
IL12-4/WTpooled	1.01957	1
IL1-4/WTpooled	1.18783	1
WT/WTpooled	1.02606	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	1.06057	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00948	0.921
DC3000/delta hrp 6h	0.94843	0.95
DC3000/delta hrp 12h	0.78327
DC3000/delta hrp 24h	1.06281	0.438

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	1.04432	1
Exp 36h	1.23858	1
Exp 60h	1.09164	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02055	1
Var 0h	1.04916	1
Var 12h I row2-row1	1.03492	1
Var 12h NI row2-row1	0.68793	0.627
Var 36h I row2-row1	1.10335	0.908
Var 36h NI row2-row1	9.16701	1
Var 60h I row2-row1	0.78317	0.832
Var 60h NI row2-row1	0.70895	0.977
Time course 0hI-0hNI	0.88484	0.437
Time course 12hI-12hNI	1.77827	0.012
Time course 36hI-36hNI	2.46458	0.004
Time course 60hI-60hNI	1.53825	0.022

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)	0.94765	0.348
transgenic ySAMdc/azygous control (breaker)	0.80216	0.49
transgenic ySAMdc/azygous control (red)	1.11927	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9704	0.126

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.58842	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.76424	0.172
Manapal/WT (break)	0.76895	1
Manapal/WT (red)	0.68516	0.181