Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.1.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.27484	0.303
27DAP/17DAP	0.92752	0.863
39DAP/27DAP	1.41727	0.121
41DAP/39DAP	0.76144	0.223
42DAP/41DAP	1.07467	1
43DAP/42DAP	1.23288	1
47DAP/43DAP	1.18191	0.68
52DAP/47DAP	0.83736	0.551
57DAP/52DAP	0.95412	0.952

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92518	0.344
17DAP/reference	1.17031	0.787
27DAP/reference	1.59397	0.017
39DAP/reference	1.26686	0.423
41DAP/reference	1.06052	1
42DAP/reference	1.55555	0.001
43DAP/reference	1.36223	0.009
47DAP/reference	1.73099	0.001
52DAP/reference	1.25098	0.121
57DAP/reference	1.45769	0.061

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.63594	0.508
27DAP/17DAP	0.96564	0.943
39DAP/27DAP	0.86005	0.35
41DAP/39DAP	0.86102	0.781
42DAP/41DAP	1.64816	0.234
43DAP/42DAP	0.87035	0.576
47DAP/43DAP	1.06608	0.973
52DAP/47DAP	1.14749
57DAP/52DAP	0.85926	0.668
57DAP/7DAP	0.72485	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34598	0.053
17DAP/reference	1.21629	0.008
27DAP/reference	1.66757	0.008
39DAP/reference	2.77101	0.005
41DAP/reference	1.39207	0.024
42DAP/reference	2.83462	0.006
43DAP/reference	2.73923	0.007
47DAP/reference	2.14122	0.019
52DAP/reference	2.18959	0.009
57DAP/reference	1.61146	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.67276	0.029
17DAP/reference	1.06969	1
27DAP/reference	1.55446	0.036
39DAP/reference	2.87488	0.011
41DAP/reference	1.28702	0.037
42DAP/reference	2.27857	0.007
43DAP/reference	1.2518	0.899
47DAP/reference	2.23071	0.008
52DAP/reference	1.42274	0.006
57DAP/reference	1.00621	0.789

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17199	0.18
17DAP/reference	1.17022	0.365
27DAP/reference	2.09344	0.014
39DAP/reference	2.00363	0.008
41DAP/reference	1.66945	0.006
42DAP/reference	1.81318	0.008
43DAP/reference	2.32477	0.01
47DAP/reference	1.44849	0.019
52DAP/reference	1.70669	0.051
57DAP/reference	3.56873	0.009

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04422	1
26DAP/20DAP	N/A	N/A
34DAP/26DAP	1.38527	0.092
51DAP/34DAP	12.7561	0.883
52DAP/51DAP	0.79936
53DAP/52DAP	0.45666	0.049
55DAP/53DAP	1.25333	0.693
57DAP/55DAP	0.69891	0.194
62DAP/57DAP	0.82421	0.162
68DAP/62DAP	1.4001	0.023
68DAP/14DAP	0.99938	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.2201	0.814

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.8066	0.26
Mature Green Tomato/Ripe Tomato	1.07957
Immature Eggplant/Mature Eggplant	0.8502	0.111
Ripe Pepper/Ripe Tomato	0.7584	1
Mature Eggplant/Ripe Tomato	0.46853	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.83558	0.613
1-1-2/M82	0.99566	1
12-2/M82	0.91296	0.955
12-4/M82	1.15476	1
1-3/M82	2.30976	0.277
2-1-1/M82	0.81589	0.465
2-1/M82	0.99198	1
2-6/M82	0.96691	1
3-2/M82	1.00262	1
4-1-1/M82	0.94228	1
4-1/M82	2.91713	1
4-3-2/M82	1.13618	1
4-3/M82	0.87444	0.72
5-3/M82	0.99159	1
6-2/M82	0.983	1
6-3/M82	0.99296	1
7-1/M82	1.22072	0.598
7-2/M82	1.28645	1
9-3-2/M82	1.4031	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.81418	0.321
IL2-6/WTpooled	0.82395	0.473
IL7-5/WTpooled	0.90351	1
IL7-3/WTpooled	1.05599	1
IL12-4/WTpooled	0.90209	0.71
IL1-4/WTpooled	0.93498	0.699
WT/WTpooled	0.96154	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01617	0.921
DC3000/delta hrp 6h	0.96456	0.95
DC3000/delta hrp 12h	0.99594	1
DC3000/delta hrp 24h	0.94965	0.598

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	1.32381	0.254
Exp 36h	1.28177	1
Exp 60h	1.2963	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.103	0.654
transgenic ySAMdc/azygous control (breaker)	1.06474	1
transgenic ySAMdc/azygous control (red)	1.25435	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.76784	0.042

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.96943	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.96456	1
Manapal/WT (break)	1.10946	1
Manapal/WT (red)	1.16727	0.413