Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.10.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90928	0.419
27DAP/17DAP	1.18056	0.845
39DAP/27DAP	1.4593	0.219
41DAP/39DAP	0.93552	0.785
42DAP/41DAP	0.89632	1
43DAP/42DAP	1.27638	0.929
47DAP/43DAP	0.57804	0.067
52DAP/47DAP	1.02392	0.967
57DAP/52DAP	1.11357	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.6306	0.014
17DAP/reference	0.90017	0.208
27DAP/reference	0.93087	0.457
39DAP/reference	1.04123	0.975
41DAP/reference	0.76727	0.065
42DAP/reference	1.90508	0.001
43DAP/reference	1.22026	0.013
47DAP/reference	1.03469	0.885
52DAP/reference	0.67902	0.04
57DAP/reference	0.94486	0.34

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99429	0.847
27DAP/17DAP	1.09737	0.69
39DAP/27DAP	0.84235	0.103
41DAP/39DAP	1.26165	0.169
42DAP/41DAP	1.12573	1
43DAP/42DAP	0.88436	0.063
47DAP/43DAP	1.00519	1
52DAP/47DAP	0.71518	0.067
57DAP/52DAP	1.05146	0.856
57DAP/7DAP	0.71278	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.20638	0.024
17DAP/reference	1.29106	0.006
27DAP/reference	1.63383	0.006
39DAP/reference	1.57885	0.006
41DAP/reference	1.97156	0.008
42DAP/reference	2.0596	0.037
43DAP/reference	2.0809	0.006
47DAP/reference	2.0743	0.014
52DAP/reference	2.13417	0.007
57DAP/reference	1.35284	0.014

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.36082	0.054
17DAP/reference	1.38186	0.056
27DAP/reference	2.38557	0.012
39DAP/reference	1.81844	0.011
41DAP/reference	2.00855	0.005
42DAP/reference	1.95129	0.008
43DAP/reference	1.22435	0.617
47DAP/reference	1.41803	0.029
52DAP/reference	0.92102	0.111
57DAP/reference	0.86681	0.194

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.75123	0.019
17DAP/reference	1.13076	0.371
27DAP/reference	1.32359	0.059
39DAP/reference	1.74207	0.005
41DAP/reference	1.50542	0.01
42DAP/reference	1.48671	0.013
43DAP/reference	1.79054	0.013
47DAP/reference	0.89168	0.132
52DAP/reference	1.22234	0.312
57DAP/reference	1.09659	0.867

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.28041	0.966
26DAP/20DAP	1.58825	0.134
34DAP/26DAP	0.78702	0.228
51DAP/34DAP	1.31988	0.402
52DAP/51DAP	0.68696	1
53DAP/52DAP	1.21142	0.334
55DAP/53DAP	0.64279	0.03
57DAP/55DAP	1.16172	0.898
62DAP/57DAP	1.01813	0.994
68DAP/62DAP	1.19255	0.367
68DAP/14DAP	0.74692	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.97209	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.5333	0.101
Mature Green Tomato/Ripe Tomato	1.19338	0.267
Immature Eggplant/Mature Eggplant	1.21437	0.085
Ripe Pepper/Ripe Tomato	1.94191	0.258
Mature Eggplant/Ripe Tomato	0.8625	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.76107	0.613
1-1-2/M82	1.23028	1
12-2/M82	0.85912	0.955
12-4/M82	1.11066	1
1-3/M82	2.97369	0.248
2-1-1/M82	1.07608	0.764
2-1/M82	0.77261	0.325
2-6/M82	0.90303	1
3-2/M82	1.07539
4-1-1/M82	0.82913	1
4-1/M82	1.17567	1
4-3-2/M82	1.22425	0.508
4-3/M82	1.11322	1
5-3/M82	1.12982	0.467
6-2/M82	1.68902	0.253
6-3/M82	1.1877	1
7-1/M82	1.02036	1
7-2/M82	1.37454	1
9-3-2/M82	1.28599

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.73726
IL2-6/WTpooled	0.72535	1
IL7-5/WTpooled	6.72322
IL7-3/WTpooled	1.17425	1
IL12-4/WTpooled	0.75664	0.71
IL1-4/WTpooled	2.41284	1
WT/WTpooled	0.91755	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	1.07129	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11471	0.774
DC3000/delta hrp 6h	1.05659	1
DC3000/delta hrp 12h	1.04036	1
DC3000/delta hrp 24h	0.99542	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.44663	0.355
DC3000 delta B/DC3000 delta AB	0.99409	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.16331	1
Exp 36h	1.29416	1
Exp 60h	1.28752	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99131	1
Var 0h	1.17574	0.936
Var 12h I row2-row1	1.03292	1
Var 12h NI row2-row1	1.0186	1
Var 36h I row2-row1	1.18916	0.601
Var 36h NI row2-row1	0.93584	0.743
Var 60h I row2-row1	0.94826	0.832
Var 60h NI row2-row1	0.87923	0.38
Time course 0hI-0hNI	1.00322	1
Time course 12hI-12hNI	1.03841	0.639
Time course 36hI-36hNI	1.20965	0.005
Time course 60hI-60hNI	2.10313	0.008

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)	1.09708	0.272
transgenic ySAMdc/azygous control (breaker)	0.82899	0.251
transgenic ySAMdc/azygous control (red)	0.8415	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.10128	0.177

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.5711	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.81468	1
Manapal/WT (break)	1.10128	1
Manapal/WT (red)	1.00907	1