Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.13.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12588	1
27DAP/17DAP	0.88529	0.73
39DAP/27DAP	1.62884	0.076
41DAP/39DAP	0.93719	0.769
42DAP/41DAP	0.86095	1
43DAP/42DAP	0.97039	0.925
47DAP/43DAP	0.82853	0.449
52DAP/47DAP	0.82411	0.548
57DAP/52DAP	1.04993	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86476	0.205
17DAP/reference	1.02365	0.74
27DAP/reference	0.97248	0.642
39DAP/reference	1.10026	0.277
41DAP/reference	0.94453	0.542
42DAP/reference	0.89828	0.028
43DAP/reference	0.9665	0.538
47DAP/reference	0.83802	0.009
52DAP/reference	1.08632	0.498
57DAP/reference	0.95613	0.277

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91275	0.679
27DAP/17DAP	0.89173	0.782
39DAP/27DAP	1.45503	0.259
41DAP/39DAP	0.68902	0.547
42DAP/41DAP	1.01133	0.84
43DAP/42DAP	1.37927	0.324
47DAP/43DAP	0.74953	0.247
52DAP/47DAP	0.93367	0.801
57DAP/52DAP	1.59512	0.077
57DAP/7DAP	1.13595

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85308	0.203
17DAP/reference	0.91777	0.167
27DAP/reference	1.21522	0.035
39DAP/reference	0.97251	0.474
41DAP/reference	0.9052	0.073
42DAP/reference	1.0251	0.889
43DAP/reference	1.17056	0.256
47DAP/reference	1.00255	1
52DAP/reference	0.93504	0.232
57DAP/reference	0.90779	0.25

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90285	0.286
17DAP/reference	0.94578	0.399
27DAP/reference	0.83923	0.134
39DAP/reference	0.85648	0.144
41DAP/reference	0.89203	0.089
42DAP/reference	1.19229	0.879
43DAP/reference	1.06509	0.949
47DAP/reference	0.87096	0.051
52DAP/reference	1.24536	0.019
57DAP/reference	0.95442	0.519

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90292	0.044
17DAP/reference	0.9489	0.335
27DAP/reference	0.85257	0.052
39DAP/reference	0.89821	0.147
41DAP/reference	1.12698	0.083
42DAP/reference	1.03185	0.943
43DAP/reference	0.74745	0.033
47DAP/reference	0.82492	0.093
52DAP/reference	0.88408	0.368
57DAP/reference	0.84648	0.064

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9774	1
26DAP/20DAP	1.47754	0.256
34DAP/26DAP	0.63914	0.119
51DAP/34DAP	1.00606	0.937
52DAP/51DAP	1.09026	0.86
53DAP/52DAP	0.96563	0.844
55DAP/53DAP	0.97678	0.82
57DAP/55DAP	0.50836	0.154
62DAP/57DAP	0.88953	0.466
68DAP/62DAP	0.98702	0.81
68DAP/14DAP	1.92923	0.031

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.79835	0.269

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	39.7528	0.095
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	1.17442
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	0.72252
4-1-1/M82	N/A	N/A
4-1/M82	1.41925
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.8702	0.419
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.68202
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	0.93614	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	2.57655
IL12-4/WTpooled	1.6653	0.646
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	1.26069

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	1.01738	1
DC3000/delta hrp 6h	1.28717
DC3000/delta hrp 12h	1.23893	1
DC3000/delta hrp 24h	1.11307	0.535

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.16054	1
Exp 60h	1.0974	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.786	1
Var 0h	0.92885	1
Var 12h I row2-row1	0.69859	1
Var 12h NI row2-row1	0.90088
Var 36h I row2-row1	0.99909	1
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.76064	0.904
Time course 0hI-0hNI	0.77371	0.323
Time course 12hI-12hNI	1.12529	0.684
Time course 36hI-36hNI	1.26444	0.58
Time course 60hI-60hNI	0.71313	0.026

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)	1.85228	0.347
transgenic ySAMdc/azygous control (breaker)	1.42206	1
transgenic ySAMdc/azygous control (red)	1.3776	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95047	0.286

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.11827	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.03326	1
Manapal/WT (red)	0.92129	0.728