Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.20.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78682	0.278
27DAP/17DAP	0.98083	1
39DAP/27DAP	1.4897	0.225
41DAP/39DAP	0.97758	0.92
42DAP/41DAP	0.92035	1
43DAP/42DAP	1.5368	0.91
47DAP/43DAP	1.34375	0.542
52DAP/47DAP	1.17275	0.837
57DAP/52DAP	0.86138	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16406	0.207
17DAP/reference	0.97985	0.701
27DAP/reference	0.96466	0.623
39DAP/reference	0.89964	0.276
41DAP/reference	0.92747	0.341
42DAP/reference	0.90664	0.024
43DAP/reference	0.86397	0.045
47DAP/reference	0.88802	0.06
52DAP/reference	0.93825	0.371
57DAP/reference	0.98815	0.61

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.97258	0.045
27DAP/17DAP	1.1721	0.909
39DAP/27DAP	1.11344	0.581
41DAP/39DAP	1.09344	1
42DAP/41DAP	0.63336	0.115
43DAP/42DAP	1.05563	0.83
47DAP/43DAP	1.27007	0.758
52DAP/47DAP	0.78104	0.378
57DAP/52DAP	1.79807	0.627
57DAP/7DAP	0.72509	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01511	1
17DAP/reference	0.92531	0.144
27DAP/reference	0.91046	0.042
39DAP/reference	0.86814	0.012
41DAP/reference	0.92476	0.107
42DAP/reference	0.96726	0.393
43DAP/reference	0.89454	0.22
47DAP/reference	0.89399	0.168
52DAP/reference	0.9566	0.304
57DAP/reference	0.99394	0.61

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89435	0.329
17DAP/reference	0.77263	0.011
27DAP/reference	0.89315	0.203
39DAP/reference	0.8397	0.097
41DAP/reference	0.86283	0.115
42DAP/reference	0.72572	0.03
43DAP/reference	0.82783	0.032
47DAP/reference	0.71477	0.048
52DAP/reference	0.89366	0.143
57DAP/reference	0.87574	0.092

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96371	0.489
17DAP/reference	0.86728	0.124
27DAP/reference	1.02135	0.934
39DAP/reference	0.89145	0.046
41DAP/reference	0.91639	0.331
42DAP/reference	0.76566	0.019
43DAP/reference	0.9021	0.294
47DAP/reference	0.82061	0.048
52DAP/reference	0.89947	0.376
57DAP/reference	0.84403	0.092

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.73446	0.787
26DAP/20DAP	1.98533	0.099
34DAP/26DAP	1.00437	1
51DAP/34DAP	0.80486	0.217
52DAP/51DAP	0.98727	1
53DAP/52DAP	0.96328	0.848
55DAP/53DAP	0.89684	0.43
57DAP/55DAP	1.24385	0.682
62DAP/57DAP	1.21774	1
68DAP/62DAP	1.29907	0.722
68DAP/14DAP	2.2505	0.146

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.34217	0.027

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.57445	0.058
Mature Green Tomato/Ripe Tomato	1.15791	0.058
Immature Eggplant/Mature Eggplant	2.96581	0.05
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	3.93378	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.63249
1-1-2/M82	0.80632
12-2/M82	N/A	N/A
12-4/M82	0.73948	0.282
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	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.87679	0.467
6-2/M82	N/A	N/A
6-3/M82	0.93132
7-1/M82	N/A	N/A
7-2/M82	0.83376
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.71686
IL12-4/WTpooled	1.163	0.737
IL1-4/WTpooled	0.96985
WT/WTpooled	1.11039	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	0.95157	1
DC3000/delta hrp 6h	1.15168	1
DC3000/delta hrp 12h	1.09222	1
DC3000/delta hrp 24h	1.06908	0.422

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01872	1
Exp 36h	1.32109	1
Exp 60h	0.7648	0.266

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98088	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.73154
Var 12h NI row2-row1	0.81226	0.394
Var 36h I row2-row1	0.8966	0.805
Var 36h NI row2-row1	1.81345	0.482
Var 60h I row2-row1	1.14786
Var 60h NI row2-row1	1.24267	0.904
Time course 0hI-0hNI	1.04945	0.63
Time course 12hI-12hNI	0.93039	0.646
Time course 36hI-36hNI	0.53269	0.023
Time course 60hI-60hNI	0.6726	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)	1.16539	0.699
transgenic ySAMdc/azygous control (breaker)	0.86719	0.251
transgenic ySAMdc/azygous control (red)	0.96083	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.07107	0.587

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.10013	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.84829	0.105
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.11297	1