Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.15.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.47701	0.656
27DAP/17DAP	1.57244	0.697
39DAP/27DAP	1.62891	0.626
41DAP/39DAP	0.78883	0.483
42DAP/41DAP	1.02819	1
43DAP/42DAP	1.27966	1
47DAP/43DAP	2.22051	0.49
52DAP/47DAP	1.07643	0.976
57DAP/52DAP	5.17053	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80596	0.049
17DAP/reference	0.84157	0.033
27DAP/reference	0.95514	0.484
39DAP/reference	0.88062	0.039
41DAP/reference	0.83777	0.049
42DAP/reference	0.79304	0.001
43DAP/reference	0.99337	0.84
47DAP/reference	0.87629	0.014
52DAP/reference	1.02116	0.84
57DAP/reference	1.12732	0.159

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0593	0.947
27DAP/17DAP	1.00422	0.943
39DAP/27DAP	1.20364	0.691
41DAP/39DAP	1.0972	1
42DAP/41DAP	0.80049	0.208
43DAP/42DAP	1.15052	0.478
47DAP/43DAP	1.01044	0.969
52DAP/47DAP	0.84756	0.329
57DAP/52DAP	1.38766	0.199
57DAP/7DAP	0.67683	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99528	0.682
17DAP/reference	0.89837	0.072
27DAP/reference	0.97871	0.462
39DAP/reference	1.06411	0.371
41DAP/reference	1.00254	0.778
42DAP/reference	1.07186	0.686
43DAP/reference	1.31233	0.028
47DAP/reference	0.94322	0.383
52DAP/reference	1.16801	0.086
57DAP/reference	0.9566	0.341

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85503	0.176
17DAP/reference	0.78337	0.013
27DAP/reference	0.82598	0.056
39DAP/reference	0.90457	0.079
41DAP/reference	0.94409	0.34
42DAP/reference	0.81377	0.016
43DAP/reference	0.82418	0.087
47DAP/reference	0.87181	0.013
52DAP/reference	0.83318	0.055
57DAP/reference	0.86347	0.05

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04742	0.709
17DAP/reference	0.94389	0.444
27DAP/reference	1.04754	0.179
39DAP/reference	1.49286	0.275
41DAP/reference	0.89244	0.04
42DAP/reference	0.98901	0.816
43DAP/reference	0.87747	0.179
47DAP/reference	0.89181	0.02
52DAP/reference	0.76688	0.142
57DAP/reference	0.94117	0.38

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01212	1
26DAP/20DAP	1.53675	0.46
34DAP/26DAP	1.20247	1
51DAP/34DAP	1.78036	0.597
52DAP/51DAP	1.24048	0.842
53DAP/52DAP	1.00774	0.891
55DAP/53DAP	1.83301	0.317
57DAP/55DAP	0.89296	0.623
62DAP/57DAP	1.18255	0.257
68DAP/62DAP	1.0051	0.863
68DAP/14DAP	1.58031	0.063

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.28965	0.865

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

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	N/A	N/A
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	N/A	N/A
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	0.86979	0.243
IL2-6/WTpooled	0.97274	1
IL7-5/WTpooled	1.04983	1
IL7-3/WTpooled	0.90139	1
IL12-4/WTpooled	0.92845	0.71
IL1-4/WTpooled	0.85566	0.476
WT/WTpooled	0.95074	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	0.87326

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.2584	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.9211	1
DC3000/delta hrp 24h	1.10687	0.821

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	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9925	1
Var 0h	0.69161	0.223
Var 12h I row2-row1	1.5882	0.544
Var 12h NI row2-row1	0.85001	0.317
Var 36h I row2-row1	1.06891	0.298
Var 36h NI row2-row1	0.88777	0.743
Var 60h I row2-row1	1.17424	0.319
Var 60h NI row2-row1	0.91732	0.932
Time course 0hI-0hNI	1.03029	0.867
Time course 12hI-12hNI	0.84857	0.161
Time course 36hI-36hNI	0.82015	0.028
Time course 60hI-60hNI	0.60434	0.011

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	1.88841	1
transgenic ySAMdc/azygous control (red)	1.09383	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06515	0.069

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.09797	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.88895	1
Manapal/WT (red)	0.8426	0.274