Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.2.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.06062	0.336
27DAP/17DAP	1.3861	0.613
39DAP/27DAP	1.7726	0.1
41DAP/39DAP	0.55633	0.045
42DAP/41DAP	1.16481	0.844
43DAP/42DAP	0.99361	0.932
47DAP/43DAP	1.011	0.98
52DAP/47DAP	0.70913	0.273
57DAP/52DAP	1.1446	0.907

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89871	0.167
17DAP/reference	0.91908	0.138
27DAP/reference	1.0751	0.277
39DAP/reference	1.09886	0.403
41DAP/reference	0.92962	0.154
42DAP/reference	1.12048	0.287
43DAP/reference	1.02251	0.928
47DAP/reference	1.23863	0.001
52DAP/reference	1.27543	0.012
57DAP/reference	1.09754	0.27

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.46788	0.036
27DAP/17DAP	1.11472	0.775
39DAP/27DAP	0.96095	0.754
41DAP/39DAP	1.6588	0.895
42DAP/41DAP	1.20022	0.879
43DAP/42DAP	0.8426	0.216
47DAP/43DAP	0.94681	0.712
52DAP/47DAP	1.02822	1
57DAP/52DAP	1.16855	0.311
57DAP/7DAP	1.42868	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93058	0.168
17DAP/reference	0.93033	0.094
27DAP/reference	0.89119	0.025
39DAP/reference	0.89812	0.039
41DAP/reference	1.09839	0.445
42DAP/reference	1.09891	0.405
43DAP/reference	0.95706	0.403
47DAP/reference	1.14463	0.235
52DAP/reference	1.02828	0.563
57DAP/reference	1.09392	0.25

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01307	0.786
17DAP/reference	1.22012	0.147
27DAP/reference	1.40271	0.056
39DAP/reference	1.67486	0.013
41DAP/reference	1.5561	0.005
42DAP/reference	1.34344	0.012
43DAP/reference	1.17606	0.362
47DAP/reference	1.14438	0.02
52DAP/reference	1.33477	0.006
57DAP/reference	1.24563	0.166

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00829	0.804
17DAP/reference	1.01002	0.855
27DAP/reference	0.80078	0.056
39DAP/reference	1.04277	0.733
41DAP/reference	0.92317	0.209
42DAP/reference	0.84874	0.172
43DAP/reference	1.19493	0.375
47DAP/reference	1.35826	0.008
52DAP/reference	0.9641	0.65
57DAP/reference	1.48455	0.026

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.1872	0.945
26DAP/20DAP	1.74643	0.117
34DAP/26DAP	1.08625	1
51DAP/34DAP	1.00973	0.96
52DAP/51DAP	0.70829	0.151
53DAP/52DAP	1.17922	0.343
55DAP/53DAP	0.8748	0.252
57DAP/55DAP	1.06684	0.927
62DAP/57DAP	0.79487	0.466
68DAP/62DAP	1.15459	0.808
68DAP/14DAP	1.29431	0.436

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.59179	0.025

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.82766	0.282
Mature Green Tomato/Ripe Tomato	1.18547	0.267
Immature Eggplant/Mature Eggplant	1.02554	0.507
Ripe Pepper/Ripe Tomato	1.14083	1
Mature Eggplant/Ripe Tomato	1.03752	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99304	1
1-1-2/M82	1.4867	1
12-2/M82	N/A	N/A
12-4/M82	1.65237	1
1-3/M82	1.09385	1
2-1-1/M82	1.13908	1
2-1/M82	N/A	N/A
2-6/M82	0.94092	1
3-2/M82	1.12191	0.549
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.05016	1
5-3/M82	0.98947	1
6-2/M82	0.63168
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.02823
9-3-2/M82	1.49256

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.92623	0.321
IL2-6/WTpooled	1.28232
IL7-5/WTpooled	1.22774	0.792
IL7-3/WTpooled	0.99029	1
IL12-4/WTpooled	1.03114	1
IL1-4/WTpooled	0.95376	0.834
WT/WTpooled	1.01155	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	0.95681	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94242	1
DC3000/delta hrp 6h	1.03884	0.95
DC3000/delta hrp 12h	0.96391	1
DC3000/delta hrp 24h	1.00847	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.37796	0.145
DC3000 delta B/DC3000 delta AB	1.07802	0.381

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.96237	1
Exp 36h	1.03443	1
Exp 60h	1.1555	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97905	1
Var 0h	1.2104	0.936
Var 12h I row2-row1	1.07269	0.654
Var 12h NI row2-row1	1.02384	1
Var 36h I row2-row1	1.40811	0.742
Var 36h NI row2-row1	1.2107	1
Var 60h I row2-row1	0.74468	0.439
Var 60h NI row2-row1	0.97241	1
Time course 0hI-0hNI	1.08554	0.63
Time course 12hI-12hNI	0.95486	0.556
Time course 36hI-36hNI	1.12345	0.063
Time course 60hI-60hNI	1.2266	0.042

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)	0.99463	0.862
transgenic ySAMdc/azygous control (breaker)	0.58446	0.125
transgenic ySAMdc/azygous control (red)	1.02962	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.12322	0.051

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.82867	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.02647	1
Manapal/WT (break)	1.0379	1
Manapal/WT (red)	1.44429	0.164