Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.3.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96172	0.722
27DAP/17DAP	0.67386	0.162
39DAP/27DAP	0.73237	0.304
41DAP/39DAP	0.91289	0.545
42DAP/41DAP	1.15746	0.797
43DAP/42DAP	1.29302	0.296
47DAP/43DAP	0.94166	0.779
52DAP/47DAP	0.71332	0.339
57DAP/52DAP	0.83335	0.708

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34088	0.055
17DAP/reference	0.95708	0.63
27DAP/reference	0.93329	0.314
39DAP/reference	0.87111	0.513
41DAP/reference	0.91015	0.434
42DAP/reference	0.88749	0.12
43DAP/reference	0.4377
47DAP/reference	0.76656	0.001
52DAP/reference	0.61551	0.018
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93568	0.484
27DAP/17DAP	0.88045	0.648
39DAP/27DAP	0.55889	0.035
41DAP/39DAP	1.01215	0.973
42DAP/41DAP	1.01932	0.926
43DAP/42DAP	0.59507	0.022
47DAP/43DAP	0.80631	0.075
52DAP/47DAP	0.98577	0.93
57DAP/52DAP	0.70139	0.052
57DAP/7DAP	0.45139	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.51129	0.024
17DAP/reference	1.19195	0.269
27DAP/reference	0.75046	0.039
39DAP/reference	0.86385	0.083
41DAP/reference	0.75721	0.017
42DAP/reference	0.81828	0.023
43DAP/reference	0.89791	0.22
47DAP/reference	0.92756	0.383
52DAP/reference	0.8351	0.019
57DAP/reference	0.88149	0.101

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08113	0.75
17DAP/reference	1.20764	0.216
27DAP/reference	0.76669	0.115
39DAP/reference	0.8914	0.178
41DAP/reference	0.76349	0.013
42DAP/reference	0.70024	0.017
43DAP/reference	0.57663	0.012
47DAP/reference	0.65503	0.016
52DAP/reference	0.57466	0.004
57DAP/reference	0.50062	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.1046	0.016
17DAP/reference	1.6126	0.145
27DAP/reference	1.04299	0.695
39DAP/reference	1.20443	0.33
41DAP/reference	0.84841	0.185
42DAP/reference	0.76701	0.087
43DAP/reference	0.96452	0.523
47DAP/reference	1.24492	0.037
52DAP/reference	0.90587	0.334
57DAP/reference	1.26484	0.051

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.14835	0.966
26DAP/20DAP	1.21527	0.524
34DAP/26DAP	1.02635	1
51DAP/34DAP	0.84805	0.268
52DAP/51DAP	0.96614	1
53DAP/52DAP	0.88108	0.386
55DAP/53DAP	0.50745	0.016
57DAP/55DAP	0.87864	0.56
62DAP/57DAP	1.04231	0.902
68DAP/62DAP	0.86046	0.429
68DAP/14DAP	0.7631	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.24004	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.43604	0.059
Mature Green Tomato/Ripe Tomato	6.14713	0.015
Immature Eggplant/Mature Eggplant	0.65057	0.062
Ripe Pepper/Ripe Tomato	5.65211	0.256
Mature Eggplant/Ripe Tomato	7.9944	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.65639	0.742
1-1-2/M82	1.12724	1
12-2/M82	0.91563
12-4/M82	0.76233	1
1-3/M82	1.22884
2-1-1/M82	1.32519	1
2-1/M82	N/A	N/A
2-6/M82	2.5319	0.374
3-2/M82	0.74304
4-1-1/M82	N/A	N/A
4-1/M82	2.27028	1
4-3-2/M82	N/A	N/A
4-3/M82	1.27193	1
5-3/M82	0.80763	1
6-2/M82	N/A	N/A
6-3/M82	0.85474	1
7-1/M82	0.42258
7-2/M82	2.00115	0.324
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.37916	0.277
IL2-6/WTpooled	1.53197	1
IL7-5/WTpooled	1.36216	0.792
IL7-3/WTpooled	1.23619	1
IL12-4/WTpooled	1.05711	1
IL1-4/WTpooled	0.98261	1
WT/WTpooled	0.99343	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	0.91645	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.26428
DC3000/delta hrp 6h	0.95936	0.95
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.53619	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.68193	0.025
DC3000 delta B/DC3000 delta AB	0.63097	0.021

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.03418	1
Exp 36h	0.8086	0.589
Exp 60h	0.67075	0.278

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	0.98871	1
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)	0.88643	0.377
transgenic ySAMdc/azygous control (breaker)	0.98848	1
transgenic ySAMdc/azygous control (red)	3.07077	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.89569	0.242

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.44512	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.01998	0.084
Manapal/WT (break)	4.26686	0.126
Manapal/WT (red)	3.68156	0.133