Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.5.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12204	0.646
27DAP/17DAP	1.00896	1
39DAP/27DAP	0.95792	0.663
41DAP/39DAP	1.03299	0.814
42DAP/41DAP	0.9526	1
43DAP/42DAP	1.11019	0.873
47DAP/43DAP	1.11735	0.527
52DAP/47DAP	0.86071	0.623
57DAP/52DAP	1.08178	0.894

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82408	0.052
17DAP/reference	1.10245	0.342
27DAP/reference	0.95784	0.538
39DAP/reference	0.81356	0.026
41DAP/reference	1.0749	0.365
42DAP/reference	1.03488	0.449
43DAP/reference	0.94655	0.48
47DAP/reference	1.00574	1
52DAP/reference	0.92709	0.36
57DAP/reference	0.8846	0.034

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78415	0.06
27DAP/17DAP	1.1035	0.686
39DAP/27DAP	1.15977	0.623
41DAP/39DAP	1.01415	1
42DAP/41DAP	0.93617	0.572
43DAP/42DAP	1.13	0.086
47DAP/43DAP	1.00215	0.973
52DAP/47DAP	1.07391	0.823
57DAP/52DAP	1.00641	0.921
57DAP/7DAP	0.89612	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80851	0.039
17DAP/reference	0.87444	0.072
27DAP/reference	0.86028	0.01
39DAP/reference	0.90097	0.011
41DAP/reference	0.87941	0.014
42DAP/reference	0.89938	0.32
43DAP/reference	0.91543	0.091
47DAP/reference	0.75782	0.04
52DAP/reference	0.90773	0.061
57DAP/reference	0.84988	0.042

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87412	0.087
17DAP/reference	0.86363	0.011
27DAP/reference	0.85821	0.027
39DAP/reference	0.91263	0.085
41DAP/reference	0.89567	0.089
42DAP/reference	0.93457	0.237
43DAP/reference	0.98911	0.67
47DAP/reference	0.94995	0.036
52DAP/reference	0.94122	0.239
57DAP/reference	0.88119	0.043

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86276	0.048
17DAP/reference	0.89238	0.13
27DAP/reference	0.89677	0.044
39DAP/reference	0.90559	0.021
41DAP/reference	0.87741	0.04
42DAP/reference	0.79824	0.032
43DAP/reference	0.86189	0.018
47DAP/reference	0.91515	0.12
52DAP/reference	0.85539	0.177
57DAP/reference	0.78954	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.90537	1
26DAP/20DAP	0.94655	1
34DAP/26DAP	1.02045	1
51DAP/34DAP	1.0577	0.581
52DAP/51DAP	0.87304	1
53DAP/52DAP	1.13279	0.753
55DAP/53DAP	0.95761	0.784
57DAP/55DAP	1.14091	0.492
62DAP/57DAP	N/A	N/A
68DAP/62DAP	1.57229	0.11
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.82091	0.097

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.00978	1
Mature Green Tomato/Ripe Tomato	1.0994	0.363
Immature Eggplant/Mature Eggplant	1.17909	0.507
Ripe Pepper/Ripe Tomato	1.66122	0.256
Mature Eggplant/Ripe Tomato	1.86514

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02991	1
1-1-2/M82	1.00596	1
12-2/M82	0.9298	0.721
12-4/M82	0.96921	1
1-3/M82	0.97359	0.441
2-1-1/M82	0.96802	0.92
2-1/M82	1.43658	1
2-6/M82	0.95089	1
3-2/M82	1.02471	0.395
4-1-1/M82	1.12417	1
4-1/M82	0.92782	1
4-3-2/M82	0.87768	0.698
4-3/M82	0.9302	0.72
5-3/M82	0.98908	1
6-2/M82	0.91358	1
6-3/M82	1.03231	1
7-1/M82	0.9902	1
7-2/M82	1.0042	1
9-3-2/M82	0.78058	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.07428	0.493
IL2-6/WTpooled	0.89217	0.473
IL7-5/WTpooled	0.99081	1
IL7-3/WTpooled	1.30941	1
IL12-4/WTpooled	1.16717	0.523
IL1-4/WTpooled	1.22901	0.426
WT/WTpooled	0.86581	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	0.79736	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08771	0.875
DC3000/delta hrp 6h	1.67747	1
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	1.04279	0.673

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.9993	1
DC3000 delta B/DC3000 delta AB	1.03511	0.609

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.27045	1
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	1.01676	1
Var 0h	1.243	1
Var 12h I row2-row1	1.00719	0.736
Var 12h NI row2-row1	0.88427	0.627
Var 36h I row2-row1	1.9918	1
Var 36h NI row2-row1	1.15635	0.276
Var 60h I row2-row1	1.1063	0.562
Var 60h NI row2-row1	1.2423	0.793
Time course 0hI-0hNI	1.03442	0.867
Time course 12hI-12hNI	0.92794	0.239
Time course 36hI-36hNI	0.853	0.027
Time course 60hI-60hNI	0.58437	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)	0.94249	0.614
transgenic ySAMdc/azygous control (breaker)	1.38283	1
transgenic ySAMdc/azygous control (red)	1.33725	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96824	0.208

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.20663	0.307
Manapal/WT (break)	1.03666	1
Manapal/WT (red)	0.91609	0.607