Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.1.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.26547	0.414
27DAP/17DAP	0.48074	0.027
39DAP/27DAP	0.61135	0.253
41DAP/39DAP	0.61739	0.047
42DAP/41DAP	0.5703	0.262
43DAP/42DAP	1.27276	0.787
47DAP/43DAP	0.3549	0.049
52DAP/47DAP	1.227	0.879
57DAP/52DAP	1.05965	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75987	0.07
17DAP/reference	0.73024	0.011
27DAP/reference	0.76158	0.019
39DAP/reference	0.65213	0.026
41DAP/reference	0.61326	0.009
42DAP/reference	0.70042	0.001
43DAP/reference	0.74562	0.021
47DAP/reference	0.66134	0.001
52DAP/reference	0.63912	0.013
57DAP/reference	0.76455	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.99503	0.036
27DAP/17DAP	0.71344	0.132
39DAP/27DAP	0.24755	0.028
41DAP/39DAP	1.50061	0.051
42DAP/41DAP	0.77058	0.026
43DAP/42DAP	0.43721	0.022
47DAP/43DAP	0.81387	0.211
52DAP/47DAP	1.0242	0.941
57DAP/52DAP	0.83761	0.498
57DAP/7DAP	0.21449	0.143

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10971	0.36
17DAP/reference	0.77853	0.02
27DAP/reference	0.47961	0.01
39DAP/reference	0.36765	0.011
41DAP/reference	0.32195	0.012
42DAP/reference	0.28755	0.01
43DAP/reference	0.21899	0.009
47DAP/reference	0.39817	0.036
52DAP/reference	0.31283	0.009
57DAP/reference	0.28605	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.66846	0.009
17DAP/reference	0.64293	0.012
27DAP/reference	0.79707	0.076
39DAP/reference	0.67361	0.028
41DAP/reference	0.7368	0.023
42DAP/reference	0.72893	0.019
43DAP/reference	0.42937	0.007
47DAP/reference	0.74804	0.011
52DAP/reference	0.55588	0.004
57DAP/reference	0.46083	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.21597	0.029
17DAP/reference	1.70343	0.125
27DAP/reference	1.44013	0.031
39DAP/reference	1.08463	0.496
41DAP/reference	0.7016	0.037
42DAP/reference	0.57037	0.032
43DAP/reference	0.62439	0.03
47DAP/reference	0.61473	0.004
52DAP/reference	0.40419	0.047
57DAP/reference	1.35492	0.132

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02627	1
26DAP/20DAP	1.09904	0.886
34DAP/26DAP	0.82117	0.084
51DAP/34DAP	0.38901	0.049
52DAP/51DAP	0.75831	0.079
53DAP/52DAP	0.6438	0.049
55DAP/53DAP	0.76227	0.135
57DAP/55DAP	0.86887	0.664
62DAP/57DAP	1.00933	1
68DAP/62DAP	1.05194	1
68DAP/14DAP	0.82103	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.34112	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.62268	0.058
Mature Green Tomato/Ripe Tomato	14.9269	0.015
Immature Eggplant/Mature Eggplant	0.49876	0.062
Ripe Pepper/Ripe Tomato	16.9287	0.256
Mature Eggplant/Ripe Tomato	35.7356	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.93216
12-2/M82	0.7831	0.862
12-4/M82	0.85697
1-3/M82	N/A	N/A
2-1-1/M82	0.85697	1
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.12803	0.443
4-1-1/M82	0.9585
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.80161
5-3/M82	2.03781	0.36
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.02057
7-2/M82	1.35541
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.94349	1
IL2-6/WTpooled	1.37546	0.419
IL7-5/WTpooled	1.05788	1
IL7-3/WTpooled	1.01246	1
IL12-4/WTpooled	1.15135	0.891
IL1-4/WTpooled	1.13507	1
WT/WTpooled	0.93204	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	1.03633	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00426	1
DC3000/delta hrp 6h	0.91322	0.95
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.94316	0.84

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	0.84203

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00182	1
Exp 36h	0.99326	1
Exp 60h	1.01355	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98272	1
Var 0h	0.92924	1
Var 12h I row2-row1	0.91544	0.565
Var 12h NI row2-row1	1.0274	1
Var 36h I row2-row1	0.85881	1
Var 36h NI row2-row1	0.92403	0.549
Var 60h I row2-row1	1.25999	0.562
Var 60h NI row2-row1	1.03184	0.904
Time course 0hI-0hNI	1.00383	1
Time course 12hI-12hNI	1.01436	0.777
Time course 36hI-36hNI	1.02095	0.722
Time course 60hI-60hNI	0.85259	0.081

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)	1.12551	0.798
transgenic ySAMdc/azygous control (breaker)	3.84787	0.162
transgenic ySAMdc/azygous control (red)	1.22007	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.51137	0.074

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.4743	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	22.6692	0.088
Manapal/WT (break)	12.3828	0.123
Manapal/WT (red)	3.13529	0.413