Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.18.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04533	0.964
27DAP/17DAP	1.27007	0.804
39DAP/27DAP	0.92149	0.652
41DAP/39DAP	1.01254	1
42DAP/41DAP	0.84959	0.774
43DAP/42DAP	1.38451	0.501
47DAP/43DAP	1.37772	0.576
52DAP/47DAP	1.34693	0.608
57DAP/52DAP	0.99589	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84034	0.052
17DAP/reference	0.98077	0.737
27DAP/reference	0.9412	0.286
39DAP/reference	1.06765	0.664
41DAP/reference	0.94795	0.542
42DAP/reference	0.93605	0.064
43DAP/reference	1.07701	0.36
47DAP/reference	0.91361	0.116
52DAP/reference	0.96617	0.427
57DAP/reference	1.19764	0.186

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80299	0.595
27DAP/17DAP	0.94335	0.748
39DAP/27DAP	0.81109	0.283
41DAP/39DAP	1.04686	1
42DAP/41DAP	1.11587	0.947
43DAP/42DAP	1.0157	1
47DAP/43DAP	1.06553	0.848
52DAP/47DAP	0.79967	0.183
57DAP/52DAP	0.91997	0.673
57DAP/7DAP	1.09991	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10675	0.65
17DAP/reference	1.12301	0.102
27DAP/reference	1.03173	0.974
39DAP/reference	0.99688	0.64
41DAP/reference	1.18929	0.475
42DAP/reference	1.08204	0.308
43DAP/reference	1.1732	0.118
47DAP/reference	1.0076	1
52DAP/reference	1.18839	0.013
57DAP/reference	1.16349	0.076

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15542	0.47
17DAP/reference	0.82191	0.059
27DAP/reference	0.92903	0.423
39DAP/reference	0.7982	0.087
41DAP/reference	0.83737	0.112
42DAP/reference	1.04094	1
43DAP/reference	1.26935	0.562
47DAP/reference	1.07346	0.603
52DAP/reference	0.87069	0.111
57DAP/reference	0.94115	0.408

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90626	0.214
17DAP/reference	1.15645	0.362
27DAP/reference	1.39277	0.033
39DAP/reference	1.26805	0.004
41DAP/reference	1.06982	0.521
42DAP/reference	1.11529	0.45
43DAP/reference	0.9838	0.614
47DAP/reference	1.02881	1
52DAP/reference	1.1124	0.549
57DAP/reference	0.81333	0.09

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.57324	0.966
26DAP/20DAP	0.7617	0.512
34DAP/26DAP	1.4304	1
51DAP/34DAP	1.08643	0.719
52DAP/51DAP	1.19664	0.413
53DAP/52DAP	0.99313	0.97
55DAP/53DAP	1.31728	0.429
57DAP/55DAP	0.98424	0.888
62DAP/57DAP	1.11113	0.868
68DAP/62DAP	0.98787	0.81
68DAP/14DAP	0.98698	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.95628	0.493

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.49077
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.99795	1
Mature Eggplant/Ripe Tomato	1.77851

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.14854	0.877
1-1-2/M82	0.94379	1
12-2/M82	N/A	N/A
12-4/M82	1.02956
1-3/M82	0.55772	0.378
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.96704	1
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.64576
4-3-2/M82	N/A	N/A
4-3/M82	0.9335
5-3/M82	0.89214	0.49
6-2/M82	0.65657	1
6-3/M82	1.0475	1
7-1/M82	N/A	N/A
7-2/M82	0.80076	0.796
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.99356	1
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	0.86149
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	0.99021	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00797	1
DC3000/delta hrp 6h	0.88884	0.95
DC3000/delta hrp 12h	0.88519	1
DC3000/delta hrp 24h	0.97293	0.84

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	0.81734	0.328
Exp 36h	0.86202	0.406
Exp 60h	0.71604	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02441	1
Var 0h	0.5232	0.325
Var 12h I row2-row1	1.00196	1
Var 12h NI row2-row1	0.94047	0.627
Var 36h I row2-row1	0.64274	0.805
Var 36h NI row2-row1	1.01604	1
Var 60h I row2-row1	1.09824	1
Var 60h NI row2-row1	0.91624	0.701
Time course 0hI-0hNI	0.89073	0.497
Time course 12hI-12hNI	0.93204	0.398
Time course 36hI-36hNI	0.83677	0.029
Time course 60hI-60hNI	0.38639	0.007

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)	1.10294	0.408
transgenic ySAMdc/azygous control (breaker)	1.01577	1
transgenic ySAMdc/azygous control (red)	0.97727	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9834	0.431

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.28027	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.84429	0.083
Manapal/WT (break)	1.29165	0.14
Manapal/WT (red)	0.79179	0.229