Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.17.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96685	0.728
27DAP/17DAP	0.97421	0.957
39DAP/27DAP	0.8356	0.402
41DAP/39DAP	1.39039	0.386
42DAP/41DAP	1.19018	0.903
43DAP/42DAP	1.01001	1
47DAP/43DAP	1.06795	0.569
52DAP/47DAP	1.07062	0.906
57DAP/52DAP	0.90231	0.759

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98737	0.616
17DAP/reference	1.0718	0.089
27DAP/reference	1.02432	0.529
39DAP/reference	1.04085	0.486
41DAP/reference	1.09567	0.043
42DAP/reference	0.98795	0.398
43DAP/reference	1.04689	0.518
47DAP/reference	0.9812	0.366
52DAP/reference	0.9829	0.53
57DAP/reference	0.90393	0.124

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98919	0.782
27DAP/17DAP	0.9825	0.782
39DAP/27DAP	1.00225	1
41DAP/39DAP	1.07756	0.514
42DAP/41DAP	1.0037	0.932
43DAP/42DAP	0.99721	1
47DAP/43DAP	1.01607	0.95
52DAP/47DAP	0.97697	0.901
57DAP/52DAP	1.00991	0.992
57DAP/7DAP	0.97277	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95748	0.071
17DAP/reference	0.87931	0.011
27DAP/reference	0.91088	0.014
39DAP/reference	0.96478	0.23
41DAP/reference	0.95415	0.024
42DAP/reference	0.96163	0.275
43DAP/reference	0.96591	0.279
47DAP/reference	0.97255	0.504
52DAP/reference	0.98835	0.363
57DAP/reference	0.95393	0.199

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97919	0.655
17DAP/reference	0.92673	0.143
27DAP/reference	0.87114	0.074
39DAP/reference	0.94759	0.25
41DAP/reference	0.90605	0.115
42DAP/reference	0.91847	0.067
43DAP/reference	0.9468	0.328
47DAP/reference	1.01452	0.675
52DAP/reference	0.94527	0.121
57DAP/reference	0.99368	0.754

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90256	0.052
17DAP/reference	0.93099	0.167
27DAP/reference	0.97663	0.416
39DAP/reference	0.93017	0.026
41DAP/reference	0.91886	0.058
42DAP/reference	0.8284	0.016
43DAP/reference	0.91905	0.081
47DAP/reference	0.96652	0.371
52DAP/reference	0.86463	0.166
57DAP/reference	0.65355	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97094	1
26DAP/20DAP	0.94719	0.512
34DAP/26DAP	0.98949	1
51DAP/34DAP	1.0144	0.909
52DAP/51DAP	1.00618	0.939
53DAP/52DAP	0.98185	0.978
55DAP/53DAP	0.92573	0.389
57DAP/55DAP	1.08816	0.728
62DAP/57DAP	1.11066	0.8
68DAP/62DAP	1.05824	0.885
68DAP/14DAP	1.18141	0.403

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.93273	0.092

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.99588	0.692
Mature Green Tomato/Ripe Tomato	0.87316	0.107
Immature Eggplant/Mature Eggplant	1.0922	0.485
Ripe Pepper/Ripe Tomato	1.14494	1
Mature Eggplant/Ripe Tomato	1.62451	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05489	1
1-1-2/M82	1.08417	1
12-2/M82	0.97768	0.678
12-4/M82	0.9956	1
1-3/M82	0.92645	0.441
2-1-1/M82	1.13865	0.689
2-1/M82	1.02294	1
2-6/M82	1.03297	0.594
3-2/M82	1.01665
4-1-1/M82	0.96874	1
4-1/M82	0.92946	1
4-3-2/M82	0.91832	0.698
4-3/M82	0.96653	0.475
5-3/M82	1.07575	1
6-2/M82	1.11988	1
6-3/M82	0.98131	1
7-1/M82	0.92534	1
7-2/M82	1.04309	1
9-3-2/M82	0.79198	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.29092	0.277
IL2-6/WTpooled	1.04449	1
IL7-5/WTpooled	0.64425	1
IL7-3/WTpooled	1.3267	1
IL12-4/WTpooled	1.34897	0.737
IL1-4/WTpooled	1.10282	1
WT/WTpooled	1.07891	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04097	0.921
DC3000/delta hrp 6h	0.71161	0.81
DC3000/delta hrp 12h	1.09401	1
DC3000/delta hrp 24h	0.99597	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.10255	0.145
DC3000 delta B/DC3000 delta AB	1.05284	0.503

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	0.97618	0.259

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00973	1
Var 0h	1.09207	0.936
Var 12h I row2-row1	1.02463	0.795
Var 12h NI row2-row1	1.00801	1
Var 36h I row2-row1	0.93864	1
Var 36h NI row2-row1	0.88323	0.421
Var 60h I row2-row1	1.51935	0.562
Var 60h NI row2-row1	1.13512	0.904
Time course 0hI-0hNI	1.0281	1
Time course 12hI-12hNI	1.05587	0.65
Time course 36hI-36hNI	0.9715	0.494
Time course 60hI-60hNI	1.15168	0.08

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)	0.82734	0.314
transgenic ySAMdc/azygous control (breaker)	0.84188	0.142
transgenic ySAMdc/azygous control (red)	1.05585	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03252	0.495

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.07776	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.92345	1
Manapal/WT (break)	0.72661	0.333
Manapal/WT (red)	1.43664	1