Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.19.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.19314	0.523
27DAP/17DAP	1.1096	0.883
39DAP/27DAP	0.97057	0.719
41DAP/39DAP	0.91006	0.627
42DAP/41DAP	1.00866	1
43DAP/42DAP	0.92718	0.806
47DAP/43DAP	1.13499	0.68
52DAP/47DAP	0.86598	0.623
57DAP/52DAP	1.1988	0.95

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11628	0.334
17DAP/reference	1.0954	0.384
27DAP/reference	1.11658	0.548
39DAP/reference	1.2103	0.174
41DAP/reference	1.15238	0.855
42DAP/reference	1.57392	0.001
43DAP/reference	1.33187
47DAP/reference	1.50066	0.275
52DAP/reference	1.54203	0.272
57DAP/reference	1.37722	0.845

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.50861	0.052
27DAP/17DAP	0.98285	0.887
39DAP/27DAP	1.00911	1
41DAP/39DAP	0.89031	0.412
42DAP/41DAP	1.0979	0.495
43DAP/42DAP	0.78543	0.024
47DAP/43DAP	1.01213	0.973
52DAP/47DAP	0.99685	0.969
57DAP/52DAP	1.02292	1
57DAP/7DAP	0.70112	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86367	0.115
17DAP/reference	0.85919	0.082
27DAP/reference	0.81871	0.011
39DAP/reference	0.70998	0.011
41DAP/reference	0.88046	0.098
42DAP/reference	0.9141	0.2
43DAP/reference	0.71648	0.011
47DAP/reference	1.0413	1
52DAP/reference	0.69468	0.014
57DAP/reference	0.59801	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02873	1
17DAP/reference	1.41009	0.024
27DAP/reference	1.74971	0.012
39DAP/reference	1.47928	0.015
41DAP/reference	1.87599	0.006
42DAP/reference	1.62902	0.02
43DAP/reference	1.20043	0.239
47DAP/reference	1.35449	0.008
52DAP/reference	1.355	0.006
57DAP/reference	1.2151	0.567

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98791	0.566
17DAP/reference	1.078	0.767
27DAP/reference	0.72797	0.052
39DAP/reference	0.7895	0.076
41DAP/reference	0.88885	0.264
42DAP/reference	1.13593	0.816
43DAP/reference	0.98033	0.523
47DAP/reference	1.3934	0.037
52DAP/reference	0.87164	0.342
57DAP/reference	1.66167	0.072

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.89823	0.611
26DAP/20DAP	1.27662	0.158
34DAP/26DAP	1.14756	0.819
51DAP/34DAP	0.79779	0.069
52DAP/51DAP	1.09754	0.542
53DAP/52DAP	0.80555	0.138
55DAP/53DAP	0.89439	0.462
57DAP/55DAP	1.00389	0.909
62DAP/57DAP	0.9054	0.681
68DAP/62DAP	1.33773	0.813
68DAP/14DAP	1.3885	0.541

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.913	0.224

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.49719
Mature Green Tomato/Ripe Tomato	1.09561	0.166
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.35408	0.224
Mature Eggplant/Ripe Tomato	0.88059	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9609	0.944
1-1-2/M82	1.04202	1
12-2/M82	1.12114	1
12-4/M82	1.11005	1
1-3/M82	1.09985	1
2-1-1/M82	1.05783	0.764
2-1/M82	1.09396	1
2-6/M82	1.03089	1
3-2/M82	0.92186
4-1-1/M82	1.11428	1
4-1/M82	1.18212	0.853
4-3-2/M82	1.02838	1
4-3/M82	1.12889	1
5-3/M82	1.11891	0.572
6-2/M82	1.00239	1
6-3/M82	1.02316	1
7-1/M82	1.07078	1
7-2/M82	0.96143	0.881
9-3-2/M82	1.30764	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.27297	0.277
IL2-6/WTpooled	0.80611	0.348
IL7-5/WTpooled	1.47049	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.97284	1
IL1-4/WTpooled	1.15146	1
WT/WTpooled	1.01756	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	1.14896	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02585	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.74376	1
DC3000/delta hrp 24h	0.98228	0.934

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.01765	1
DC3000 delta B/DC3000 delta AB	1.09017	0.42

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.34978	0.223
Exp 36h	1.0696	1
Exp 60h	1.42923	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01863	1
Var 0h	1.05638	1
Var 12h I row2-row1	1.09188	0.613
Var 12h NI row2-row1	1.03246	1
Var 36h I row2-row1	0.87356	0.575
Var 36h NI row2-row1	1.00959	1
Var 60h I row2-row1	0.82054	0.582
Var 60h NI row2-row1	1.09122	0.904
Time course 0hI-0hNI	1.02218	0.852
Time course 12hI-12hNI	1.02333	0.754
Time course 36hI-36hNI	1.09902	0.28
Time course 60hI-60hNI	0.87146	0.081

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)	0.99057	0.931
transgenic ySAMdc/azygous control (breaker)	0.89309	0.49
transgenic ySAMdc/azygous control (red)	0.96066	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.87292	0.146

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.51184	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.80656	0.172
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.86089	0.424