Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.4.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92019	0.586
27DAP/17DAP	0.88526	0.72
39DAP/27DAP	0.8314	0.487
41DAP/39DAP	1.31679	0.511
42DAP/41DAP	1.19339	0.802
43DAP/42DAP	0.91767	0.851
47DAP/43DAP	0.99428	0.835
52DAP/47DAP	1.08013	0.946
57DAP/52DAP	0.97767	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90827	0.205
17DAP/reference	1.04005	0.399
27DAP/reference	1.00781	0.996
39DAP/reference	0.98895	0.828
41DAP/reference	1.04938	0.451
42DAP/reference	0.90586	0.009
43DAP/reference	1.00533	0.982
47DAP/reference	0.89567	0.065
52DAP/reference	0.8741	0.091
57DAP/reference	1.00153	0.845

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94698	0.509
27DAP/17DAP	0.9409	0.782
39DAP/27DAP	1.13138	0.41
41DAP/39DAP	0.96323	0.934
42DAP/41DAP	0.98554	0.816
43DAP/42DAP	1.07751	0.297
47DAP/43DAP	1.10505	0.805
52DAP/47DAP	1.24332	0.354
57DAP/52DAP	1.09707	0.518
57DAP/7DAP	0.885	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86479	0.074
17DAP/reference	0.76652	0.021
27DAP/reference	0.7755	0.011
39DAP/reference	0.91912	0.043
41DAP/reference	0.84996	0.064
42DAP/reference	0.85338	0.06
43DAP/reference	0.70022	0.01
47DAP/reference	0.85489	0.101
52DAP/reference	0.68503	0.014
57DAP/reference	0.85443	0.128

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05958	0.484
17DAP/reference	0.88997	0.075
27DAP/reference	0.89267	0.195
39DAP/reference	0.8431	0.074
41DAP/reference	0.84122	0.08
42DAP/reference	0.79819	0.019
43DAP/reference	0.92829	0.404
47DAP/reference	0.81496	0.014
52DAP/reference	0.94086	0.034
57DAP/reference	0.98213	0.649

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85305	0.112
17DAP/reference	0.94505	0.488
27DAP/reference	0.84604	0.155
39DAP/reference	0.75192	0.011
41DAP/reference	0.86475	0.04
42DAP/reference	0.86667	0.172
43DAP/reference	0.76529	0.019
47DAP/reference	0.96192	0.383
52DAP/reference	0.66743	0.068
57DAP/reference	0.77147	0.026

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03712	1
26DAP/20DAP	0.97936	1
34DAP/26DAP	1.06972	1
51DAP/34DAP	0.98305	0.856
52DAP/51DAP	1.17453	0.158
53DAP/52DAP	0.92799	0.64
55DAP/53DAP	0.98286	0.864
57DAP/55DAP	0.84984	0.37
62DAP/57DAP	1.3118	0.115
68DAP/62DAP	0.94412	0.769
68DAP/14DAP	0.93493	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.56156	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.31243	0.058
Mature Green Tomato/Ripe Tomato	0.7128	0.226
Immature Eggplant/Mature Eggplant	1.05543	0.462
Ripe Pepper/Ripe Tomato	1.38483
Mature Eggplant/Ripe Tomato	1.14597	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.39691	0.574
1-1-2/M82	0.7938	0.804
12-2/M82	N/A	N/A
12-4/M82	0.99474	1
1-3/M82	N/A	N/A
2-1-1/M82	0.61907
2-1/M82	N/A	N/A
2-6/M82	0.65813
3-2/M82	0.64459
4-1-1/M82	N/A	N/A
4-1/M82	0.93457	1
4-3-2/M82	N/A	N/A
4-3/M82	1.31266	1
5-3/M82	1.30349
6-2/M82	N/A	N/A
6-3/M82	0.92964
7-1/M82	1.19139
7-2/M82	N/A	N/A
9-3-2/M82	0.79026	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.76396	1
IL2-6/WTpooled	1.15285
IL7-5/WTpooled	0.98233	1
IL7-3/WTpooled	0.40843
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.05277	1
WT/WTpooled	0.94343	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	1.00134	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07022	0.921
DC3000/delta hrp 6h	1.52896	1
DC3000/delta hrp 12h	1.02679	1
DC3000/delta hrp 24h	0.94677	0.67

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.15945	0.16
DC3000 delta B/DC3000 delta AB	1.09186	0.457

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92299	1
Exp 36h	1.96729	0.693
Exp 60h	1.37081	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.00038	1
transgenic ySAMdc/azygous control (breaker)	0.83679	0.251
transgenic ySAMdc/azygous control (red)	0.91419	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03418	0.08

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.03253	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.87357	1
Manapal/WT (break)	0.83684	1
Manapal/WT (red)	0.92762	0.424