Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.2.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80402	0.19
27DAP/17DAP	0.92259	0.831
39DAP/27DAP	0.81515	0.507
41DAP/39DAP	1.20926	0.663
42DAP/41DAP	0.98511	1
43DAP/42DAP	0.99394	0.937
47DAP/43DAP	1.04126	0.979
52DAP/47DAP	1.06692	0.959
57DAP/52DAP	0.96306	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13942	0.025
17DAP/reference	1.12194	0.166
27DAP/reference	1.11084	0.103
39DAP/reference	1.04733	0.57
41DAP/reference	0.99508	0.814
42DAP/reference	0.92073	0.03
43DAP/reference	1.01661	1
47DAP/reference	0.99854	0.674
52DAP/reference	0.94648	0.341
57DAP/reference	0.86425	0.156

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98791	0.763
27DAP/17DAP	0.98743	0.887
39DAP/27DAP	0.97327	0.668
41DAP/39DAP	1.02229	0.853
42DAP/41DAP	1.02139	0.861
43DAP/42DAP	1.00148	1
47DAP/43DAP	0.9723	0.823
52DAP/47DAP	1.01388	0.945
57DAP/52DAP	0.95166	0.43
57DAP/7DAP	0.98865	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.70646	0.065
17DAP/reference	1.26663	0.032
27DAP/reference	0.79844	0.01
39DAP/reference	1.35951	0.005
41DAP/reference	1.06258	0.375
42DAP/reference	1.17107	0.076
43DAP/reference	1.23902	0.028
47DAP/reference	1.19929	0.124
52DAP/reference	1.44456	0.021
57DAP/reference	1.23991	0.147

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17543	0.206
17DAP/reference	1.1225	0.186
27DAP/reference	1.00846	0.765
39DAP/reference	1.01737	1
41DAP/reference	1.03494	1
42DAP/reference	0.89445	0.108
43DAP/reference	0.90874	0.175
47DAP/reference	0.99148	0.625
52DAP/reference	0.92448	0.203
57DAP/reference	0.81457	0.024

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.87888	0.016
17DAP/reference	1.10919	0.641
27DAP/reference	0.87228	0.119
39DAP/reference	1.0367	0.563
41DAP/reference	0.90158	0.119
42DAP/reference	0.87135	0.041
43DAP/reference	0.97722	0.59
47DAP/reference	1.07092	0.73
52DAP/reference	1.00011	0.854
57DAP/reference	1.2653	0.042

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97991	1
26DAP/20DAP	N/A	N/A
34DAP/26DAP	1.17882	0.126
51DAP/34DAP	1.00563	0.978
52DAP/51DAP	1.07961
53DAP/52DAP	0.96309	0.803
55DAP/53DAP	1.00385	0.964
57DAP/55DAP	0.95744	0.799
62DAP/57DAP	1.36505	0.723
68DAP/62DAP	0.94838	0.769
68DAP/14DAP	0.74993	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.02911	0.908

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.2528	0.058
Mature Green Tomato/Ripe Tomato	0.87664	0.256
Immature Eggplant/Mature Eggplant	0.39934	0.057
Ripe Pepper/Ripe Tomato	2.83125	1
Mature Eggplant/Ripe Tomato	4.22066	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.12029
1-1-2/M82	0.93601	0.804
12-2/M82	N/A	N/A
12-4/M82	0.87457	0.319
1-3/M82	N/A	N/A
2-1-1/M82	1.20004
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.97556
4-1-1/M82	N/A	N/A
4-1/M82	1.56437
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.98674	1
6-2/M82	N/A	N/A
6-3/M82	0.99672
7-1/M82	1.11272
7-2/M82	0.33351
9-3-2/M82	0.89882

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.19044	0.395
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.63022	0.294
IL12-4/WTpooled	0.81541	0.71
IL1-4/WTpooled	1.04433
WT/WTpooled	0.93742	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	0.83705	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.15758	0.692
DC3000/delta hrp 6h	1.80469	1
DC3000/delta hrp 12h	0.98097	1
DC3000/delta hrp 24h	0.27354	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.02725
DC3000 delta B/DC3000 delta AB	1.10167	0.345

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98868	1
Exp 36h	0.80151	0.434
Exp 60h	0.73373	0.259

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9659	1
Var 0h	1.09343	0.98
Var 12h I row2-row1	1.13609	0.196
Var 12h NI row2-row1	1.04165	1
Var 36h I row2-row1	1.03358	1
Var 36h NI row2-row1	0.8948	0.61
Var 60h I row2-row1	0.95807
Var 60h NI row2-row1	1.08885	0.904
Time course 0hI-0hNI	1.02939	1
Time course 12hI-12hNI	0.94066	0.628
Time course 36hI-36hNI	0.92104	0.215
Time course 60hI-60hNI	0.95317	0.646

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)	0.88305	0.314
transgenic ySAMdc/azygous control (breaker)	1.00667	1
transgenic ySAMdc/azygous control (red)	0.86051	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99515	0.806

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.14102	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.67647	0.084
Manapal/WT (break)	1.27288	0.381
Manapal/WT (red)	0.93545	0.728