Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.18.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94243	0.64
27DAP/17DAP	0.78042	0.49
39DAP/27DAP	1.10347	0.899
41DAP/39DAP	1.33739	0.516
42DAP/41DAP	1.17005	0.888
43DAP/42DAP	1.25605	0.772
47DAP/43DAP	1.74878	0.412
52DAP/47DAP	1.09476	0.948
57DAP/52DAP	1.2603	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89858	0.106
17DAP/reference	0.86845	0.033
27DAP/reference	1.03932	0.771
39DAP/reference	0.84978	0.037
41DAP/reference	0.79449	0.009
42DAP/reference	0.92667	0.05
43DAP/reference	0.93073	0.448
47DAP/reference	0.92091	0.032
52DAP/reference	1.06522	0.912
57DAP/reference	1.00593	0.845

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88101	0.289
27DAP/17DAP	1.16422	0.367
39DAP/27DAP	1.04502	0.623
41DAP/39DAP	1.06249	0.88
42DAP/41DAP	0.8946	0.262
43DAP/42DAP	1.03073	0.664
47DAP/43DAP	1.03329	0.812
52DAP/47DAP	0.98204	0.913
57DAP/52DAP	1.03252	0.871
57DAP/7DAP	1.15152	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8895	0.095
17DAP/reference	0.91595	0.021
27DAP/reference	0.88626	0.01
39DAP/reference	0.97084	0.064
41DAP/reference	0.98462	0.646
42DAP/reference	0.91863	0.037
43DAP/reference	0.90192	0.012
47DAP/reference	0.90738	0.05
52DAP/reference	0.87618	0.016
57DAP/reference	0.91893	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93012	0.412
17DAP/reference	0.94287	0.389
27DAP/reference	0.9462	0.366
39DAP/reference	1.05754	0.477
41DAP/reference	1.23395	0.394
42DAP/reference	0.91243	0.073
43DAP/reference	0.89447	0.229
47DAP/reference	0.85631	0.068
52DAP/reference	0.97375	0.469
57DAP/reference	0.94494	0.361

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89033	0.04
17DAP/reference	1.00816	1
27DAP/reference	0.90252	0.029
39DAP/reference	0.88558	0.011
41DAP/reference	0.93878	0.055
42DAP/reference	0.87764	0.019
43DAP/reference	0.93571	0.305
47DAP/reference	0.85543	0.069
52DAP/reference	0.91985	0.395
57DAP/reference	1.046	0.66

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00946	1
26DAP/20DAP	0.97323	1
34DAP/26DAP	1.0711	1
51DAP/34DAP	0.908	0.522
52DAP/51DAP	0.9033	1
53DAP/52DAP	0.9767	0.868
55DAP/53DAP	1.32399	0.236
57DAP/55DAP	1.11915	0.826
62DAP/57DAP	1.08329	0.723
68DAP/62DAP	1.37371	0.413
68DAP/14DAP	1.60099	0.094

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.05014	0.908

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.04805	1
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.33991
Mature Eggplant/Ripe Tomato	0.21495	0.234

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	0.86738	0.257
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	0.83895
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	1.19927	0.395
IL7-5/WTpooled	1.56738
IL7-3/WTpooled	1.06371	0.362
IL12-4/WTpooled	1.02255	0.839
IL1-4/WTpooled	0.85244	0.422
WT/WTpooled	1.14633	0.818

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	1.06034	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91291	1
DC3000/delta hrp 6h	1.18956	0.95
DC3000/delta hrp 12h	1.02746	1
DC3000/delta hrp 24h	1.5312	0.044

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.87159	0.691
DC3000 delta B/DC3000 delta AB	0.88431	0.178

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	1.19595	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03629	1
Var 0h	0.84424	1
Var 12h I row2-row1	0.93179	0.627
Var 12h NI row2-row1	0.95117	0.627
Var 36h I row2-row1	1.09535	1
Var 36h NI row2-row1	1.14704	1
Var 60h I row2-row1	0.99251	1
Var 60h NI row2-row1	1.01981	1
Time course 0hI-0hNI	1.09167	0.182
Time course 12hI-12hNI	0.99761	1
Time course 36hI-36hNI	1.19429	0.023
Time course 60hI-60hNI	0.91399	0.161

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)	1.14363	0.272
transgenic ySAMdc/azygous control (breaker)	0.80874	0.118
transgenic ySAMdc/azygous control (red)	0.95963	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05137	0.185

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.83409	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.83986	1
Manapal/WT (break)	0.92992	1
Manapal/WT (red)	0.9528	0.607