Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.6.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04358	0.878
27DAP/17DAP	1.13632	0.845
39DAP/27DAP	0.81439	0.443
41DAP/39DAP	1.37784	0.181
42DAP/41DAP	1.10846	0.888
43DAP/42DAP	1.18983	0.728
47DAP/43DAP	0.94915	0.799
52DAP/47DAP	1.03328	0.976
57DAP/52DAP	1.15971	0.958

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.2721	0.024
17DAP/reference	0.45834	0.007
27DAP/reference	0.55482	0.011
39DAP/reference	1.60826	0.603
41DAP/reference	0.97409	0.667
42DAP/reference	3.71912	0.001
43DAP/reference	5.05933	0.006
47DAP/reference	2.82491	0.001
52DAP/reference	1.46547	0.027
57DAP/reference	3.01863	0.018

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82728	0.055
27DAP/17DAP	1.00617	1
39DAP/27DAP	1.09233	0.611
41DAP/39DAP	1.05692	1
42DAP/41DAP	0.99606	0.876
43DAP/42DAP	1.05641	0.351
47DAP/43DAP	1.02598	0.914
52DAP/47DAP	0.98	0.902
57DAP/52DAP	0.91624	0.326
57DAP/7DAP	0.89834	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7493	0.326
17DAP/reference	1.31252	0.016
27DAP/reference	0.66351	0.264
39DAP/reference	1.03463	1
41DAP/reference	0.79168	0.116
42DAP/reference	1.0822	0.889
43DAP/reference	0.94643	0.132
47DAP/reference	1.96161	0.187
52DAP/reference	1.294	0.043
57DAP/reference	1.10991	0.331

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.40227	0.008
17DAP/reference	0.34804	0.003
27DAP/reference	0.3581	0.006
39DAP/reference	0.39939	0.009
41DAP/reference	0.54472	0.01
42DAP/reference	0.75026	0.098
43DAP/reference	0.49378	0.004
47DAP/reference	0.7116	0.024
52DAP/reference	0.42701	0.003
57DAP/reference	0.34822	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95921	0.526
17DAP/reference	0.48695	0.141
27DAP/reference	0.87369	0.465
39DAP/reference	0.42239	0.006
41DAP/reference	0.91255	0.237
42DAP/reference	2.39602	0.233
43DAP/reference	4.43471	0.024
47DAP/reference	3.25344	0.005
52DAP/reference	2.52736	0.09
57DAP/reference	1.50534	0.223

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03965	1
26DAP/20DAP	0.80791	0.228
34DAP/26DAP	1.02301	1
51DAP/34DAP	1.05702	0.719
52DAP/51DAP	1.0685	0.492
53DAP/52DAP	0.94649	0.64
55DAP/53DAP	1.04989	0.781
57DAP/55DAP	1.06429	0.969
62DAP/57DAP	2.15567
68DAP/62DAP	0.91409	0.81
68DAP/14DAP	0.76801	0.09

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.93221	0.422

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.51283	0.287
Mature Green Tomato/Ripe Tomato	0.79366	0.2
Immature Eggplant/Mature Eggplant	2.18865
Ripe Pepper/Ripe Tomato	0.16629	0.293
Mature Eggplant/Ripe Tomato	0.13418	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.15483	0.877
1-1-2/M82	1.02828	1
12-2/M82	1.21979	1
12-4/M82	1.04555	1
1-3/M82	1.02486	0.479
2-1-1/M82	1.18948	0.764
2-1/M82	0.73336	0.325
2-6/M82	1.01852	1
3-2/M82	0.75661
4-1-1/M82	0.84304	0.668
4-1/M82	0.91789	1
4-3-2/M82	0.80428	0.445
4-3/M82	1.05055	1
5-3/M82	1.01006	1
6-2/M82	1.00255	1
6-3/M82	0.99747	1
7-1/M82	0.99279	1
7-2/M82	0.94623	1
9-3-2/M82	0.68799	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.11314	1
IL2-6/WTpooled	1.05146	0.788
IL7-5/WTpooled	0.93201	1
IL7-3/WTpooled	0.90049	0.418
IL12-4/WTpooled	0.79211	0.71
IL1-4/WTpooled	1.04444	1
WT/WTpooled	0.88032	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	1.09181	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95806	1
DC3000/delta hrp 6h	1.20966	1
DC3000/delta hrp 12h	1.20772	1
DC3000/delta hrp 24h	0.99763	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.76814	0.124
DC3000 delta B/DC3000 delta AB	0.92915	0.431

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.34868	1
Exp 36h	0.83231	0.363
Exp 60h	0.66309	0.196

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94856	1
Var 0h	1.07293	0.98
Var 12h I row2-row1	1.13661	0.324
Var 12h NI row2-row1	1.08937	1
Var 36h I row2-row1	1.02266	1
Var 36h NI row2-row1	1.02458	1
Var 60h I row2-row1	1.0968	1
Var 60h NI row2-row1	1.1633	0.904
Time course 0hI-0hNI	0.96806	0.852
Time course 12hI-12hNI	0.98468	0.931
Time course 36hI-36hNI	0.78865	0.078
Time course 60hI-60hNI	0.88775	0.161

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)	0.51841	0.246
transgenic ySAMdc/azygous control (breaker)	1.05993	1
transgenic ySAMdc/azygous control (red)	1.00219	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.7625	0.031

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.10846	0.14
Manapal/WT (break)	1.03598	1
Manapal/WT (red)	0.84579	0.36