Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.14.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94674	0.699
27DAP/17DAP	1.17058	0.88
39DAP/27DAP	1.60448	0.595
41DAP/39DAP	1.03415	0.857
42DAP/41DAP	0.89551	1
43DAP/42DAP	1.14706	0.993
47DAP/43DAP	1.26823	0.68
52DAP/47DAP	0.99495	0.934
57DAP/52DAP	1.0853	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78655	0.053
17DAP/reference	0.84091	0.014
27DAP/reference	0.9832	0.694
39DAP/reference	0.87274	0.159
41DAP/reference	0.67087	0.008
42DAP/reference	0.85699	0.012
43DAP/reference	0.87993	0.118
47DAP/reference	0.98727	0.503
52DAP/reference	1.17433	0.498
57DAP/reference	1.3317	0.127

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90935	0.484
27DAP/17DAP	1.01573	0.969
39DAP/27DAP	1.13202	0.465
41DAP/39DAP	1.27759	0.623
42DAP/41DAP	0.94922	0.721
43DAP/42DAP	0.93998	0.576
47DAP/43DAP	1.01958	1
52DAP/47DAP	1.08581	0.933
57DAP/52DAP	0.90038	0.56
57DAP/7DAP	1.19783	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96325	0.402
17DAP/reference	1.02803	0.754
27DAP/reference	0.9605	0.2
39DAP/reference	0.78515	0.027
41DAP/reference	0.84679	0.122
42DAP/reference	0.85265	0.055
43DAP/reference	0.85427	0.151
47DAP/reference	0.851	0.222
52DAP/reference	0.84815	0.066
57DAP/reference	0.80164	0.014

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85854	0.164
17DAP/reference	0.65476	0.009
27DAP/reference	0.86213	0.173
39DAP/reference	1.01271	1
41DAP/reference	0.92247	0.237
42DAP/reference	1.02189	1
43DAP/reference	0.89389	0.263
47DAP/reference	0.91155	0.246
52DAP/reference	0.93742	0.327
57DAP/reference	0.73292	0.05

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0057	1
17DAP/reference	1.01801	0.886
27DAP/reference	0.94945	0.337
39DAP/reference	0.90864	0.083
41DAP/reference	0.96014	0.459
42DAP/reference	0.97402	0.671
43DAP/reference	0.81382	0.076
47DAP/reference	0.91185	0.306
52DAP/reference	0.9635	0.623
57DAP/reference	0.95362	0.394

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06783	1
26DAP/20DAP	0.90172	1
34DAP/26DAP	1.00675	1
51DAP/34DAP	1.06743	0.829
52DAP/51DAP	1.02898	0.925
53DAP/52DAP	1.02568	1
55DAP/53DAP	0.98725	0.852
57DAP/55DAP	0.82624	0.313
62DAP/57DAP	1.34362	0.8
68DAP/62DAP	1.13417	1
68DAP/14DAP	1.82265

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.84028	0.186

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	N/A	N/A
IL2-6/WTpooled	1.1225	0.788
IL7-5/WTpooled	0.9182	1
IL7-3/WTpooled	1.1744	1
IL12-4/WTpooled	1.13528	0.839
IL1-4/WTpooled	1.22361	1
WT/WTpooled	0.98156	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	1.06396	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94626
DC3000/delta hrp 6h	27.2516	1
DC3000/delta hrp 12h	1.04678	1
DC3000/delta hrp 24h	0.78917	0.403

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	0.92573

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	0.90623	1
Var 0h	0.98878	0.332
Var 12h I row2-row1	1.02733	0.736
Var 12h NI row2-row1	0.77371	0.443
Var 36h I row2-row1	0.89295	0.805
Var 36h NI row2-row1	0.93519	0.791
Var 60h I row2-row1	7.05598	1
Var 60h NI row2-row1	1.10684	1
Time course 0hI-0hNI	1.09587	0.799
Time course 12hI-12hNI	1.07578	0.816
Time course 36hI-36hNI	1.09124	0.316
Time course 60hI-60hNI	1.06556	0.359

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)	1.02648	1
transgenic ySAMdc/azygous control (red)	1.13779	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02956	0.334

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.9309	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.87893	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	N/A	N/A