Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.17.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93769	0.64
27DAP/17DAP	1.44814	0.688
39DAP/27DAP	1.06643	0.956
41DAP/39DAP	1.35728	0.293
42DAP/41DAP	1.3896	0.709
43DAP/42DAP	1.20946	0.854
47DAP/43DAP	1.13274	0.746
52DAP/47DAP	0.83128	0.564
57DAP/52DAP	1.19716	0.878

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97407	0.503
17DAP/reference	0.9971	0.957
27DAP/reference	0.91145	0.141
39DAP/reference	0.9449	0.292
41DAP/reference	1.03705	0.451
42DAP/reference	1.06129	0.089
43DAP/reference	1.0871	0.05
47DAP/reference	1.09274	0.199
52DAP/reference	0.87797	0.082
57DAP/reference	0.78583	0.035

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03115	1
27DAP/17DAP	1.08423	0.69
39DAP/27DAP	1.03847	0.793
41DAP/39DAP	1.08408	0.909
42DAP/41DAP	1.04062	0.795
43DAP/42DAP	0.99455	0.928
47DAP/43DAP	1.14894	0.054
52DAP/47DAP	0.98379	0.919
57DAP/52DAP	0.88267	0.244
57DAP/7DAP	0.96823	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26986	0.041
17DAP/reference	0.99261	0.518
27DAP/reference	0.89856	0.094
39DAP/reference	1.18438	0.05
41DAP/reference	1.08659	0.56
42DAP/reference	1.31733	0.024
43DAP/reference	1.61387	0.007
47DAP/reference	0.96536	0.504
52DAP/reference	1.59304	0.011
57DAP/reference	1.71443	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10809	0.144
17DAP/reference	0.9584	0.399
27DAP/reference	0.90041	0.139
39DAP/reference	0.8576	0.056
41DAP/reference	0.80301	0.018
42DAP/reference	0.80987	0.016
43DAP/reference	1.01796	0.969
47DAP/reference	0.87124	0.02
52DAP/reference	0.91027	0.121
57DAP/reference	1.06696	0.063

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8769	0.169
17DAP/reference	0.99723	0.825
27DAP/reference	1.12904	0.216
39DAP/reference	1.10649	0.307
41DAP/reference	0.88431	0.209
42DAP/reference	0.90298	0.361
43DAP/reference	1.0022	0.827
47DAP/reference	1.10291	0.196
52DAP/reference	0.99909	0.704
57DAP/reference	0.78375	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99132	1
26DAP/20DAP	0.99172	1
34DAP/26DAP	0.82992	0.606
51DAP/34DAP	1.14022	0.458
52DAP/51DAP	0.98372	1
53DAP/52DAP	0.89177	0.612
55DAP/53DAP	1.02623	0.991
57DAP/55DAP	1.07445	0.898
62DAP/57DAP	0.9299	0.871
68DAP/62DAP	0.48961	0.037
68DAP/14DAP	0.89324	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.6918	0.285

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.60111	0.127
Mature Green Tomato/Ripe Tomato	0.59372	0.2
Immature Eggplant/Mature Eggplant	1.11068	0.248
Ripe Pepper/Ripe Tomato	0.96806	1
Mature Eggplant/Ripe Tomato	0.72139	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02969	0.877
1-1-2/M82	1.01465	1
12-2/M82	1.17295	1
12-4/M82	0.89582	1
1-3/M82	0.88695	0.378
2-1-1/M82	1.35898	0.284
2-1/M82	1.09732
2-6/M82	1.24158	0.452
3-2/M82	N/A	N/A
4-1-1/M82	1.35712	1
4-1/M82	1.12997
4-3-2/M82	2.06858
4-3/M82	1.87261	0.268
5-3/M82	0.7667	0.419
6-2/M82	0.96068	1
6-3/M82	0.79235	0.982
7-1/M82	N/A	N/A
7-2/M82	0.98554	1
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	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.75612
IL1-4/WTpooled	0.71581
WT/WTpooled	1.0536

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	1.53228	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00967	1
DC3000/delta hrp 6h	1.11684	1
DC3000/delta hrp 12h	1.01039	1
DC3000/delta hrp 24h	1.04145	0.743

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	1.33636	0.415

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.22288	0.254
Exp 36h	1.29804	0.693
Exp 60h	1.53531	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	0.91248	1
Var 0h	0.61439	1
Var 12h I row2-row1	1.3765	0.473
Var 12h NI row2-row1	0.86343	0.627
Var 36h I row2-row1	1.134	0.339
Var 36h NI row2-row1	0.98049	0.852
Var 60h I row2-row1	1.15619	1
Var 60h NI row2-row1	1.63926	1
Time course 0hI-0hNI	0.99508	1
Time course 12hI-12hNI	1.04312	0.777
Time course 36hI-36hNI	1.14336	0.031
Time course 60hI-60hNI	2.00828	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)	0.99545	0.931
transgenic ySAMdc/azygous control (breaker)	0.80721	0.251
transgenic ySAMdc/azygous control (red)	1.07341	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.46713	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.07003	1
Manapal/WT (break)	1.08067	1
Manapal/WT (red)	0.63067	0.181