Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.20.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16116	0.77
27DAP/17DAP	0.95018	0.982
39DAP/27DAP	0.86446	0.482
41DAP/39DAP	1.37199	0.447
42DAP/41DAP	0.82871	0.774
43DAP/42DAP	1.13101	0.956
47DAP/43DAP	1.08755	0.926
52DAP/47DAP	1.52191	0.67
57DAP/52DAP	1.05766	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00635	0.771
17DAP/reference	1.20589	0.036
27DAP/reference	0.97905	0.683
39DAP/reference	1.39979	0.229
41DAP/reference	1.25136	0.041
42DAP/reference	1.10923	0.352
43DAP/reference	1.14757	0.287
47DAP/reference	0.95231	0.366
52DAP/reference	1.03434	1
57DAP/reference	0.89489	0.186

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.38245	0.144
27DAP/17DAP	1.08971	0.957
39DAP/27DAP	1.22995	0.27
41DAP/39DAP	0.78633	0.321
42DAP/41DAP	0.91452	0.56
43DAP/42DAP	1.23749	0.382
47DAP/43DAP	0.99496	0.983
52DAP/47DAP	1.01033	0.962
57DAP/52DAP	1.06572	0.793
57DAP/7DAP	1.27066	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78712	0.074
17DAP/reference	0.89946	0.167
27DAP/reference	0.9276	0.215
39DAP/reference	0.69471	0.015
41DAP/reference	0.71292	0.015
42DAP/reference	0.74298	0.012
43DAP/reference	0.99458	0.637
47DAP/reference	0.91815	0.383
52DAP/reference	0.84075	0.046
57DAP/reference	0.88503	0.199

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01632	0.869
17DAP/reference	1.02595	1
27DAP/reference	0.9408	0.34
39DAP/reference	0.89925	0.298
41DAP/reference	1.03941	0.683
42DAP/reference	1.0794	0.655
43DAP/reference	1.05311	0.787
47DAP/reference	0.94381	0.359
52DAP/reference	0.94307	0.351
57DAP/reference	1.16579	0.409

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02697	0.903
17DAP/reference	0.91255	0.364
27DAP/reference	1.00315	0.843
39DAP/reference	0.83683	0.069
41DAP/reference	1.13933	0.181
42DAP/reference	0.87146	0.108
43DAP/reference	1.04243	0.646
47DAP/reference	0.98354	0.538
52DAP/reference	0.86036	0.247
57DAP/reference	1.09819	0.682

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.64812	0.966
26DAP/20DAP	1.41072	0.334
34DAP/26DAP	2.06218	0.819
51DAP/34DAP	4.06241	0.032
52DAP/51DAP	0.56545	0.151
53DAP/52DAP	2.40123	0.026
55DAP/53DAP	1.03315	0.951
57DAP/55DAP	1.55095	0.214
62DAP/57DAP	0.72978	0.016
68DAP/62DAP	0.82139	0.314
68DAP/14DAP	1.35784	0.035

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.08531	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.17656
Mature Green Tomato/Ripe Tomato	1.11818	0.948
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	9.88359
Mature Eggplant/Ripe Tomato	0.72497

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	N/A	N/A
1-3/M82	0.45662
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	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.86934	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.12434
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.72877
IL2-6/WTpooled	1.09032	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.16262	1
IL12-4/WTpooled	1.5882	0.52
IL1-4/WTpooled	0.97182
WT/WTpooled	1.1547	0.874

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	1.12721	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97677	1
DC3000/delta hrp 6h	1.1711	1
DC3000/delta hrp 12h	1.38965	1
DC3000/delta hrp 24h	0.86793	0.22

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.72575	0.093
DC3000 delta B/DC3000 delta AB	1.30169	0.491

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	1.24965	0.22

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00433
Var 0h	N/A	N/A
Var 12h I row2-row1	1.07766	0.506
Var 12h NI row2-row1	1.04197
Var 36h I row2-row1	0.97798	1
Var 36h NI row2-row1	0.55901	1
Var 60h I row2-row1	1.04039	1
Var 60h NI row2-row1	0.74255	0.904
Time course 0hI-0hNI	0.89927	0.617
Time course 12hI-12hNI	1.09771	0.633
Time course 36hI-36hNI	1.26558	0.056
Time course 60hI-60hNI	2.4605	0.019

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)	1.38445	0.612
transgenic ySAMdc/azygous control (breaker)	0.9623	1
transgenic ySAMdc/azygous control (red)	1.02722	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.85758	0.064

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.99317	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.77145	1
Manapal/WT (break)	0.97215	0.333
Manapal/WT (red)	1.35339	0.413