Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-2.2.18.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92391	0.568
27DAP/17DAP	1.24394	0.842
39DAP/27DAP	0.98728	0.798
41DAP/39DAP	1.59378	0.569
42DAP/41DAP	0.89756	1
43DAP/42DAP	1.03724	1
47DAP/43DAP	0.9333	0.71
52DAP/47DAP	0.99846	0.927
57DAP/52DAP	1.11666	0.972

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86353	0.032
17DAP/reference	0.95026	0.18
27DAP/reference	0.877	0.085
39DAP/reference	1.06748	0.615
41DAP/reference	0.99016	0.814
42DAP/reference	1.51442	0.001
43DAP/reference	1.19338	0.038
47DAP/reference	4.06288	0.001
52DAP/reference	1.59662	0.009
57DAP/reference	1.49302	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16662	0.774
27DAP/17DAP	1.23746	0.373
39DAP/27DAP	1.09134	0.854
41DAP/39DAP	0.93038	0.839
42DAP/41DAP	1.07438	0.879
43DAP/42DAP	1.05363	0.664
47DAP/43DAP	1.13405	0.805
52DAP/47DAP	1.02954	0.979
57DAP/52DAP	1.14177	0.571
57DAP/7DAP	1.2457	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14287	0.227
17DAP/reference	1.0383	0.971
27DAP/reference	0.94867	0.248
39DAP/reference	1.13441	0.114
41DAP/reference	1.17156	0.26
42DAP/reference	0.99897	0.751
43DAP/reference	1.14139	0.148
47DAP/reference	0.9885	0.671
52DAP/reference	1.26657	0.025
57DAP/reference	1.19873	0.082

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06599	0.605
17DAP/reference	0.98371	0.611
27DAP/reference	1.03982	0.917
39DAP/reference	0.92316	0.274
41DAP/reference	0.93967	0.256
42DAP/reference	0.94649	0.261
43DAP/reference	1.16365	0.327
47DAP/reference	1.23247	0.029
52DAP/reference	0.87066	0.023
57DAP/reference	1.0607	0.409

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07235	0.518
17DAP/reference	0.95613	0.537
27DAP/reference	0.97158	0.465
39DAP/reference	0.95106	0.36
41DAP/reference	0.96906	0.618
42DAP/reference	1.42903	0.313
43DAP/reference	1.55513	0.175
47DAP/reference	3.85117	0.005
52DAP/reference	2.21733	0.33
57DAP/reference	1.63255	0.081

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95001	1
26DAP/20DAP	1.39284	0.297
34DAP/26DAP	0.80585	0.322
51DAP/34DAP	1.36754	0.108
52DAP/51DAP	1.12675	0.492
53DAP/52DAP	1.26032	0.502
55DAP/53DAP	1.08087	0.955
57DAP/55DAP	1.09999	0.915
62DAP/57DAP	0.97032	0.994
68DAP/62DAP	0.65601	0.046
68DAP/14DAP	0.68072	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.17681	0.821

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.53841	0.058
Mature Green Tomato/Ripe Tomato	1.33046	0.752
Immature Eggplant/Mature Eggplant	6.26624	0.05
Ripe Pepper/Ripe Tomato	0.08942	0.224
Mature Eggplant/Ripe Tomato	0.1143	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	1.03757	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	0.95286	N/A
7-2/M82	N/A	N/A
9-3-2/M82	0.99505	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.70246	0.243
IL2-6/WTpooled	0.82383	0.383
IL7-5/WTpooled	0.87676	1
IL7-3/WTpooled	0.93607	1
IL12-4/WTpooled	0.93979	0.581
IL1-4/WTpooled	0.86969	0.476
WT/WTpooled	1.03554	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	0.88317	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.39955	0.875
DC3000/delta hrp 6h	0.84077	0.95
DC3000/delta hrp 12h	1.16855	1
DC3000/delta hrp 24h	1.06669	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.71908	N/A
DC3000 delta B/DC3000 delta AB	0.95253	0.589

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.9766	1
Exp 36h	1.79235	1
Exp 60h	0.92869	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00272	1
Var 0h	0.85745	1
Var 12h I row2-row1	1.05771	0.692
Var 12h NI row2-row1	1.1689	0.649
Var 36h I row2-row1	1.11755	0.908
Var 36h NI row2-row1	1.00636	1
Var 60h I row2-row1	0.71078	0.374
Var 60h NI row2-row1	0.9992	1
Time course 0hI-0hNI	0.89804	0.254
Time course 12hI-12hNI	0.98605	0.931
Time course 36hI-36hNI	1.11327	0.039
Time course 60hI-60hNI	1.2276	0.047

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)	0.9819	0.299
transgenic ySAMdc/azygous control (breaker)	0.38139	0.118
transgenic ySAMdc/azygous control (red)	0.96052	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.16799	0.148

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.22606	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	3.43149	0.14
Manapal/WT (break)	3.17362	0.381
Manapal/WT (red)	N/A	N/A