Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.9.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.34434	0.443
27DAP/17DAP	0.98953	0.959
39DAP/27DAP	1.22299	0.974
41DAP/39DAP	1.06964	0.859
42DAP/41DAP	1.39328	0.755
43DAP/42DAP	0.85429	0.456
47DAP/43DAP	1.32768	0.633
52DAP/47DAP	1.14806	0.98
57DAP/52DAP	1.79665	0.735

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87721	0.211
17DAP/reference	1.07734	0.27
27DAP/reference	1.01501	1
39DAP/reference	1.06116	0.504
41DAP/reference	0.96158	0.667
42DAP/reference	0.72612	0.115
43DAP/reference	1.16444	0.083
47DAP/reference	0.92672	0.191
52DAP/reference	0.93926	0.393
57DAP/reference	0.87797	0.096

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06877	0.858
27DAP/17DAP	1.17987	0.55
39DAP/27DAP	1.03782	0.832
41DAP/39DAP	0.95878	0.893
42DAP/41DAP	1.13039	0.727
43DAP/42DAP	0.8366	0.024
47DAP/43DAP	0.9513	0.577
52DAP/47DAP	1.07942	0.789
57DAP/52DAP	1.14185	0.618
57DAP/7DAP	0.81432

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22922	0.157
17DAP/reference	1.59338	0.007
27DAP/reference	1.38236	0.009
39DAP/reference	1.5084	0.02
41DAP/reference	1.29994	0.017
42DAP/reference	1.13038	0.686
43DAP/reference	1.34446	0.018
47DAP/reference	1.27083	0.604
52DAP/reference	1.13363	0.375
57DAP/reference	1.20026	0.037

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93505	0.386
17DAP/reference	0.89283	0.17
27DAP/reference	0.89549	0.22
39DAP/reference	1.10173	0.978
41DAP/reference	0.85663	0.118
42DAP/reference	0.70824	0.073
43DAP/reference	0.95436	0.486
47DAP/reference	0.81429	0.012
52DAP/reference	0.96904	0.469
57DAP/reference	0.89204	0.318

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.37639	0.06
17DAP/reference	1.18368	0.496
27DAP/reference	1.44873	0.029
39DAP/reference	1.29641	0.075
41DAP/reference	1.5749	0.125
42DAP/reference	1.21516	0.45
43DAP/reference	0.99197	0.503
47DAP/reference	1.08551	0.82
52DAP/reference	1.98965	0.119
57DAP/reference	0.93542	0.304

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01312	1
26DAP/20DAP	1.52983	0.265
34DAP/26DAP	0.8527	0.702
51DAP/34DAP	1.38038	0.044
52DAP/51DAP	1.05175	0.842
53DAP/52DAP	1.25256	0.517
55DAP/53DAP	1.21951	0.782
57DAP/55DAP	1.08624	0.955
62DAP/57DAP	1.16033	0.8
68DAP/62DAP	1.0673	0.939
68DAP/14DAP	1.1293	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.14347	0.558

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.88195	0.384
Mature Green Tomato/Ripe Tomato	1.41666	0.814
Immature Eggplant/Mature Eggplant	1.1974	0.288
Ripe Pepper/Ripe Tomato	0.86438	0.293
Mature Eggplant/Ripe Tomato	0.8752	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98735	0.961
1-1-2/M82	0.89266	1
12-2/M82	0.97392	0.955
12-4/M82	1.16599	1
1-3/M82	0.85936	0.501
2-1-1/M82	1.16756	0.375
2-1/M82	1.11236	0.345
2-6/M82	1.09292	0.695
3-2/M82	0.93074
4-1-1/M82	0.95323	1
4-1/M82	0.77964	1
4-3-2/M82	0.90624	0.487
4-3/M82	1.03305	1
5-3/M82	1.01166	1
6-2/M82	0.96051	1
6-3/M82	1.00594	1
7-1/M82	1.06103	1
7-2/M82	1.09867	1
9-3-2/M82	0.98868

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
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	0.93885	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97448	1
DC3000/delta hrp 6h	0.99379	0.95
DC3000/delta hrp 12h	0.92412	1
DC3000/delta hrp 24h	0.93473	0.662

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.18315	0.556
DC3000 delta B/DC3000 delta AB	1.14431	0.42

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.9878	1
Exp 36h	1.08267	1
Exp 60h	1.62963	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02468	1
Var 0h	1.06972	1
Var 12h I row2-row1	1.20704	0.272
Var 12h NI row2-row1	1.0416	1
Var 36h I row2-row1	0.9325	0.805
Var 36h NI row2-row1	0.96157	0.791
Var 60h I row2-row1	0.71916	0.292
Var 60h NI row2-row1	1.05529	0.904
Time course 0hI-0hNI	1.03366	0.833
Time course 12hI-12hNI	1.15748	0.175
Time course 36hI-36hNI	1.20421	0.009
Time course 60hI-60hNI	1.60183	0.008

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)	1.02242	0.571
transgenic ySAMdc/azygous control (breaker)	0.9928	1
transgenic ySAMdc/azygous control (red)	1.02924	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05087	0.148

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.8324	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.66495	0.172
Manapal/WT (break)	0.71361	1
Manapal/WT (red)	0.67642	0.181