Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.19.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91705	0.413
27DAP/17DAP	1.69151	0.544
39DAP/27DAP	1.67295	0.109
41DAP/39DAP	0.79748	0.274
42DAP/41DAP	0.58089	0.774
43DAP/42DAP	0.81439	0.665
47DAP/43DAP	0.89954	0.663
52DAP/47DAP	1.97392	0.11
57DAP/52DAP	0.75828	0.702

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.93328	0.006
17DAP/reference	0.93303	0.448
27DAP/reference	1.05576	0.996
39DAP/reference	0.6852	0.02
41DAP/reference	0.82561	0.031
42DAP/reference	1.91707	0.001
43DAP/reference	0.8296	0.031
47DAP/reference	1.22211	0.593
52DAP/reference	1.42516	0.065
57DAP/reference	1.34271	0.063

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.5825	0.036
27DAP/17DAP	0.87815	0.58
39DAP/27DAP	1.03651	0.811
41DAP/39DAP	2.01121	0.007
42DAP/41DAP	0.62514	0.023
43DAP/42DAP	1.59525	0.014
47DAP/43DAP	1.15879	0.049
52DAP/47DAP	1.53634	0.156
57DAP/52DAP	3.96566	0.029
57DAP/7DAP	1.31258	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.79335	0.024
17DAP/reference	1.21903	0.077
27DAP/reference	1.33636	0.088
39DAP/reference	1.45006	0.022
41DAP/reference	1.49028	0.013
42DAP/reference	2.52315	0.007
43DAP/reference	2.63583	0.006
47DAP/reference	1.42508	0.027
52DAP/reference	1.9174	0.007
57DAP/reference	1.95359	0.005

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.71157	0.038
17DAP/reference	1.72539	0.01
27DAP/reference	2.33011	0.013
39DAP/reference	1.61956	0.012
41DAP/reference	1.86054	0.013
42DAP/reference	1.98348	0.007
43DAP/reference	1.25793	0.407
47DAP/reference	1.95832	0.011
52DAP/reference	1.1429	0.034
57DAP/reference	1.49336	0.052

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34189	0.048
17DAP/reference	0.94851	0.433
27DAP/reference	1.4171	0.02
39DAP/reference	1.29297	0.031
41DAP/reference	1.04329	0.939
42DAP/reference	1.11385	0.692
43DAP/reference	1.35649	0.205
47DAP/reference	1.27794	0.847
52DAP/reference	2.2231	0.027
57DAP/reference	4.83667	0.005

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.84898	1
26DAP/20DAP	1.05358	1
34DAP/26DAP	0.9923	0.98
51DAP/34DAP	1.49015	0.073
52DAP/51DAP	1.0974	0.925
53DAP/52DAP	1.19977	0.296
55DAP/53DAP	1.1822	0.991
57DAP/55DAP	1.01978	0.921
62DAP/57DAP	1.00467	0.994
68DAP/62DAP	0.9423	0.834
68DAP/14DAP	0.77924	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.04094	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.07245	1
Mature Green Tomato/Ripe Tomato	0.34301	0.019
Immature Eggplant/Mature Eggplant	1.1524	0.554
Ripe Pepper/Ripe Tomato	0.30978	0.224
Mature Eggplant/Ripe Tomato	0.31391	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.80948
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.28847
4-3/M82	N/A	N/A
5-3/M82	0.34863	0.387
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.86541
7-2/M82	1.71199
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.60628	0.243
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.98155	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.10245	0.516
IL1-4/WTpooled	0.77677	0.415
WT/WTpooled	1.43758	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	0.79223	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.342	0.692
DC3000/delta hrp 6h	1.2397	1
DC3000/delta hrp 12h	0.92216	1
DC3000/delta hrp 24h	1.31036	0.047

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	1.07196	0.528

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.18584	0.693
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00332	1
Var 0h	0.81698	0.933
Var 12h I row2-row1	0.92595	0.467
Var 12h NI row2-row1	0.69487	0.627
Var 36h I row2-row1	0.98679	1
Var 36h NI row2-row1	0.90512	0.706
Var 60h I row2-row1	0.87429	0.293
Var 60h NI row2-row1	0.68935	0.408
Time course 0hI-0hNI	1.10985	0.719
Time course 12hI-12hNI	1.14468	0.313
Time course 36hI-36hNI	1.95303	0.004
Time course 60hI-60hNI	2.01175	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)	1.76054	0.372
transgenic ySAMdc/azygous control (breaker)	0.43165	0.137
transgenic ySAMdc/azygous control (red)	1.24464	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.12718	0.13

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.3213	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.13359	1
Manapal/WT (break)	1.165	1
Manapal/WT (red)	1.41014	0.164