Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.19.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88331	0.413
27DAP/17DAP	1.28067	0.841
39DAP/27DAP	0.9354	0.573
41DAP/39DAP	1.10621	0.814
42DAP/41DAP	0.91047	1
43DAP/42DAP	1.06825	1
47DAP/43DAP	0.84236	0.499
52DAP/47DAP	0.96346	0.856
57DAP/52DAP	1.55703	0.827

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.73942	0.024
17DAP/reference	0.84248	0.031
27DAP/reference	0.90414	0.275
39DAP/reference	0.86314	0.013
41DAP/reference	0.7557	0.01
42DAP/reference	0.891	0.072
43DAP/reference	0.87773	0.084
47DAP/reference	0.95599	0.322
52DAP/reference	1.0899	0.607
57DAP/reference	1.12613	0.088

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22802	0.593
27DAP/17DAP	1.09384	0.9
39DAP/27DAP	1.03399	0.832
41DAP/39DAP	1.10633	0.801
42DAP/41DAP	1.04399	1
43DAP/42DAP	0.86668	0.269
47DAP/43DAP	0.87423	0.687
52DAP/47DAP	1.3101	0.552
57DAP/52DAP	0.87285	0.566
57DAP/7DAP	0.48961	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94948	0.246
17DAP/reference	0.83848	0.056
27DAP/reference	0.92541	0.171
39DAP/reference	1.07695	0.705
41DAP/reference	0.9444	0.449
42DAP/reference	0.77128	0.063
43DAP/reference	0.97405	0.459
47DAP/reference	1.04199	0.791
52DAP/reference	1.05792	0.308
57DAP/reference	1.10665	0.382

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.69223	0.009
17DAP/reference	0.6246	0.004
27DAP/reference	0.82307	0.076
39DAP/reference	0.84408	0.037
41DAP/reference	1.02322	1
42DAP/reference	1.00655	0.723
43DAP/reference	0.80082	0.032
47DAP/reference	0.91516	0.042
52DAP/reference	0.88271	0.007
57DAP/reference	0.71483	0.004

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84655	0.098
17DAP/reference	0.80386	0.071
27DAP/reference	0.94768	0.357
39DAP/reference	0.88736	0.133
41DAP/reference	1.02202	1
42DAP/reference	0.93902	0.361
43DAP/reference	1.00062	0.827
47DAP/reference	1.00804	1
52DAP/reference	0.93991	0.505
57DAP/reference	1.11179	0.385

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.88598	1
26DAP/20DAP	0.96042	1
34DAP/26DAP	1.18934	1
51DAP/34DAP	0.82795	0.328
52DAP/51DAP	0.94867	1
53DAP/52DAP	1.15958	0.212
55DAP/53DAP	0.96623	0.784
57DAP/55DAP	0.87591	0.468
62DAP/57DAP	1.26806	0.158
68DAP/62DAP	1.62837	0.635
68DAP/14DAP	4.25186	0.067

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.69952	0.092

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.66938	0.179
Mature Green Tomato/Ripe Tomato	1.43957	0.267
Immature Eggplant/Mature Eggplant	1.14285	0.528
Ripe Pepper/Ripe Tomato	6.32299
Mature Eggplant/Ripe Tomato	4.09164

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	1.11077	0.611
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	0.88435
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.53481
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.06557	0.572
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.65145	0.321
IL2-6/WTpooled	0.9297
IL7-5/WTpooled	1.29471	0.792
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.73273
IL1-4/WTpooled	0.96692	1
WT/WTpooled	N/A	N/A

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	0.73847	0.341

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03611	1
DC3000/delta hrp 6h	0.84133	0.95
DC3000/delta hrp 12h	0.86681	1
DC3000/delta hrp 24h	1.01793	0.779

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.02004
DC3000 delta B/DC3000 delta AB	0.70654

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.70198	1
Exp 36h	0.81967	0.749
Exp 60h	0.75423	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00609
Var 0h	1.00106	1
Var 12h I row2-row1	0.84742	0.353
Var 12h NI row2-row1	0.98132	0.906
Var 36h I row2-row1	1.04013	1
Var 36h NI row2-row1	0.86129
Var 60h I row2-row1	1.04107	1
Var 60h NI row2-row1	1.00439	0.904
Time course 0hI-0hNI	0.95956	0.59
Time course 12hI-12hNI	0.85881	0.208
Time course 36hI-36hNI	0.76024	0.029
Time course 60hI-60hNI	0.36247	0.006

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)	1.14274	0.297
transgenic ySAMdc/azygous control (breaker)	1.05294	1
transgenic ySAMdc/azygous control (red)	0.90216	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01674	0.495

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.20544	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.94627	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.17516	0.413