Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.1.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01879	0.911
27DAP/17DAP	0.89627	0.766
39DAP/27DAP	0.79439	0.458
41DAP/39DAP	1.40469	0.676
42DAP/41DAP	1.16686	1
43DAP/42DAP	0.90559	0.846
47DAP/43DAP	0.99582	0.851
52DAP/47DAP	1.11014	0.739
57DAP/52DAP	0.85561	0.707

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08557	0.17
17DAP/reference	1.13086	0.029
27DAP/reference	1.1848	0.06
39DAP/reference	0.98423	0.734
41DAP/reference	1.01527	0.963
42DAP/reference	0.95208	0.081
43DAP/reference	0.97394	0.653
47DAP/reference	0.86097	0.015
52DAP/reference	0.92642	0.093
57DAP/reference	0.94283	0.262

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89248	0.376
27DAP/17DAP	1.16927	0.423
39DAP/27DAP	1.09407	0.541
41DAP/39DAP	1.11832	0.849
42DAP/41DAP	0.93633	0.572
43DAP/42DAP	0.98618	0.875
47DAP/43DAP	0.92767	0.387
52DAP/47DAP	0.98742	0.93
57DAP/52DAP	0.91976	0.415
57DAP/7DAP	1.41202	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94938	0.246
17DAP/reference	1.00249	1
27DAP/reference	1.10182	0.012
39DAP/reference	1.00315	1
41DAP/reference	1.05011	0.491
42DAP/reference	1.10897	0.013
43DAP/reference	0.94604	0.22
47DAP/reference	0.87906	0.222
52DAP/reference	0.9974	0.571
57DAP/reference	1.04672	0.117

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23465	0.059
17DAP/reference	1.01471	0.898
27DAP/reference	0.87571	0.16
39DAP/reference	0.80251	0.018
41DAP/reference	0.87382	0.028
42DAP/reference	0.89673	0.108
43DAP/reference	0.93067	0.32
47DAP/reference	0.8647	0.048
52DAP/reference	0.94973	0.327
57DAP/reference	0.95482	0.433

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03431	0.287
17DAP/reference	1.02695	0.706
27DAP/reference	1.06241	0.115
39DAP/reference	0.97288	0.464
41DAP/reference	1.02398	0.637
42DAP/reference	1.00248	1
43DAP/reference	0.94764	0.348
47DAP/reference	0.90038	0.12
52DAP/reference	0.96833	0.637
57DAP/reference	0.97005	0.444

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03185	0.966
26DAP/20DAP	1.03523	1
34DAP/26DAP	0.90021	0.811
51DAP/34DAP	1.28575	0.038
52DAP/51DAP	0.94654	1
53DAP/52DAP	0.89864	0.527
55DAP/53DAP	1.16914	0.826
57DAP/55DAP	1.10081	0.826
62DAP/57DAP	1.57408	0.569
68DAP/62DAP	0.86521	0.543
68DAP/14DAP	0.8032	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.7215	0.072

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.12243	0.287
Mature Green Tomato/Ripe Tomato	0.94033	0.715
Immature Eggplant/Mature Eggplant	0.45446	0.062
Ripe Pepper/Ripe Tomato	7.76617	0.258
Mature Eggplant/Ripe Tomato	3.10207	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95467	0.841
1-1-2/M82	0.94899	1
12-2/M82	1.3214
12-4/M82	0.92946	1
1-3/M82	0.62126
2-1-1/M82	1.25837
2-1/M82	N/A	N/A
2-6/M82	1.14087	0.695
3-2/M82	N/A	N/A
4-1-1/M82	1.17032	1
4-1/M82	1.13323	0.853
4-3-2/M82	0.77316	1
4-3/M82	0.8009
5-3/M82	0.96449	1
6-2/M82	0.74811
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.96032	1
9-3-2/M82	1.39365

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.45059
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.23879
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.14891	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	0.79479	0.256

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06673	0.921
DC3000/delta hrp 6h	1.22571	1
DC3000/delta hrp 12h	0.97212	1
DC3000/delta hrp 24h	1.11363	0.397

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.66864	0.026
DC3000 delta B/DC3000 delta AB	0.65991	0.023

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.91841	1
Exp 36h	0.73183	0.471
Exp 60h	0.54861	0.259

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97445	1
Var 0h	0.7614	0.933
Var 12h I row2-row1	0.97532	1
Var 12h NI row2-row1	1.23921	1
Var 36h I row2-row1	1.00332	1
Var 36h NI row2-row1	1.11453	1
Var 60h I row2-row1	1.25681	0.562
Var 60h NI row2-row1	1.20485	0.904
Time course 0hI-0hNI	0.9841	0.942
Time course 12hI-12hNI	0.96119	0.675
Time course 36hI-36hNI	0.87478	0.026
Time course 60hI-60hNI	0.55631	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)	0.89238	0.454
transgenic ySAMdc/azygous control (breaker)	1.42952	0.172
transgenic ySAMdc/azygous control (red)	1.17262	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95725	0.263

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	3.9617	0.229

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.40177	0.14
Manapal/WT (break)	1.09564	1
Manapal/WT (red)	1.42629	0.126