Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.20.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94683	0.713
27DAP/17DAP	1.20386	0.842
39DAP/27DAP	0.93653	0.641
41DAP/39DAP	1.12438	0.758
42DAP/41DAP	0.93238	1
43DAP/42DAP	1.12126	0.957
47DAP/43DAP	1.14044	0.4
52DAP/47DAP	0.76391	0.42
57DAP/52DAP	0.98814	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90909	0.379
17DAP/reference	0.79699	0.008
27DAP/reference	0.97048	0.61
39DAP/reference	0.96428	0.651
41DAP/reference	0.81793	0.039
42DAP/reference	0.8616	0.003
43DAP/reference	0.91988	0.234
47DAP/reference	1.01319	1
52DAP/reference	1.24119	0.019
57DAP/reference	1.23026	0.044

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12919	0.749
27DAP/17DAP	1.05285	0.912
39DAP/27DAP	1.19565	0.534
41DAP/39DAP	1.0912	0.753
42DAP/41DAP	0.92697	0.545
43DAP/42DAP	0.87262	0.197
47DAP/43DAP	1.09084	0.827
52DAP/47DAP	1.2069	0.519
57DAP/52DAP	1.08991	0.906
57DAP/7DAP	0.86137	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13063	0.201
17DAP/reference	1.0613	0.477
27DAP/reference	0.98255	0.571
39DAP/reference	1.0018	1
41DAP/reference	1.08973	0.577
42DAP/reference	0.94999	0.355
43DAP/reference	0.93277	0.1
47DAP/reference	1.00326	1
52DAP/reference	1.17982	0.121
57DAP/reference	1.13354	0.17

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91228	0.412
17DAP/reference	0.64015	0.003
27DAP/reference	0.74989	0.019
39DAP/reference	0.85661	0.067
41DAP/reference	0.84844	0.11
42DAP/reference	0.85886	0.037
43DAP/reference	0.75196	0.046
47DAP/reference	0.85925	0.017
52DAP/reference	0.84712	0.013
57DAP/reference	0.78855	0.015

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05148	0.575
17DAP/reference	0.83156	0.159
27DAP/reference	0.98877	0.657
39DAP/reference	0.88594	0.018
41DAP/reference	0.97436	0.56
42DAP/reference	1.07201	0.743
43DAP/reference	1.09428	0.445
47DAP/reference	1.01165	1
52DAP/reference	0.9218	0.395
57DAP/reference	1.22925	0.071

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.92534	1
26DAP/20DAP	0.97615	1
34DAP/26DAP	1.01971	1
51DAP/34DAP	1.9104	0.055
52DAP/51DAP	0.8802	0.151
53DAP/52DAP	1.22381	0.296
55DAP/53DAP	0.80063	0.252
57DAP/55DAP	0.99114	0.914
62DAP/57DAP	1.33208	0.081
68DAP/62DAP	1.60813	0.148
68DAP/14DAP	2.93299	0.021

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.71138	0.027

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.36372	0.073
Mature Green Tomato/Ripe Tomato	1.10163	0.752
Immature Eggplant/Mature Eggplant	1.87087	0.05
Ripe Pepper/Ripe Tomato	1.39595	1
Mature Eggplant/Ripe Tomato	0.57801	0.231

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97952
1-1-2/M82	1.13617	0.972
12-2/M82	1.0271	1
12-4/M82	0.88244	0.619
1-3/M82	2.19826
2-1-1/M82	0.90974	1
2-1/M82	N/A	N/A
2-6/M82	0.97154	1
3-2/M82	1.07439	1
4-1-1/M82	0.84893	1
4-1/M82	1.04067
4-3-2/M82	0.91257	1
4-3/M82	1.42044	0.268
5-3/M82	1.13068	1
6-2/M82	1.88543
6-3/M82	1.13497	1
7-1/M82	1.00537	1
7-2/M82	1.3179	0.385
9-3-2/M82	0.87315	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.45369	0.277
IL2-6/WTpooled	1.11618	0.659
IL7-5/WTpooled	1.28684	0.792
IL7-3/WTpooled	1.11425	0.362
IL12-4/WTpooled	1.02281	0.891
IL1-4/WTpooled	1.1105	1
WT/WTpooled	0.94715	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	1.16742	0.921
DC3000/delta hrp 6h	0.89755	0.95
DC3000/delta hrp 12h	1.14817	1
DC3000/delta hrp 24h	0.88655	0.274

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.17287
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	1.14078	1
Exp 36h	1.58694	0.349
Exp 60h	1.85779	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9617	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.0852	0.613
Var 12h NI row2-row1	1.42225	0.649
Var 36h I row2-row1	1.20288	0.908
Var 36h NI row2-row1	0.84387	0.706
Var 60h I row2-row1	0.73794	0.306
Var 60h NI row2-row1	0.68487	0.818
Time course 0hI-0hNI	0.98394	0.962
Time course 12hI-12hNI	1.45516	0.006
Time course 36hI-36hNI	2.52079	0.005
Time course 60hI-60hNI	5.68745	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)	0.96599	0.362
transgenic ySAMdc/azygous control (breaker)	1.07814	1
transgenic ySAMdc/azygous control (red)	0.95359	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.08635	0.13

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.12662	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.96031	1
Manapal/WT (break)	0.99445	1
Manapal/WT (red)	0.86491	0.503