Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.10.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78589	0.134
27DAP/17DAP	1.02151	0.964
39DAP/27DAP	1.11802	0.681
41DAP/39DAP	1.18247	0.293
42DAP/41DAP	1.02791	1
43DAP/42DAP	0.89973	0.744
47DAP/43DAP	0.77805	0.35
52DAP/47DAP	1.61483	0.205
57DAP/52DAP	0.80021	0.687

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.72345	0.035
17DAP/reference	0.80698	0.007
27DAP/reference	0.79914	0.011
39DAP/reference	0.79005	0.012
41DAP/reference	0.84845	0.016
42DAP/reference	0.90695	0.015
43DAP/reference	0.89616	0.026
47DAP/reference	0.86008	0.003
52DAP/reference	0.85706	0.062
57DAP/reference	0.76126	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97343	0.697
27DAP/17DAP	1.04099	0.957
39DAP/27DAP	1.05131	0.596
41DAP/39DAP	0.9548	0.893
42DAP/41DAP	1.06412	0.861
43DAP/42DAP	1.04088	0.699
47DAP/43DAP	1.0124	1
52DAP/47DAP	1.04433	0.883
57DAP/52DAP	0.94445	0.637
57DAP/7DAP	1.1645	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76969	0.071
17DAP/reference	0.82881	0.011
27DAP/reference	0.873	0.01
39DAP/reference	0.90173	0.011
41DAP/reference	0.83526	0.027
42DAP/reference	0.8905	0.046
43DAP/reference	0.87039	0.016
47DAP/reference	0.6911	0.036
52DAP/reference	0.82812	0.012
57DAP/reference	0.86304	0.015

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85322	0.105
17DAP/reference	0.81943	0.008
27DAP/reference	0.84864	0.119
39DAP/reference	0.74512	0.047
41DAP/reference	0.93547	0.16
42DAP/reference	0.95921	0.189
43DAP/reference	0.77036	0.084
47DAP/reference	1.01538	0.751
52DAP/reference	0.7886	0.003
57DAP/reference	0.83366	0.016

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82825	0.05
17DAP/reference	0.86566	0.129
27DAP/reference	0.82683	0.025
39DAP/reference	0.8799	0.033
41DAP/reference	0.82936	0.026
42DAP/reference	0.9163	0.087
43DAP/reference	0.86621	0.033
47DAP/reference	0.75558	0.008
52DAP/reference	0.70855	0.047
57DAP/reference	0.79443	0.03

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.91977	0.961
26DAP/20DAP	0.94973	1
34DAP/26DAP	0.95498	0.834
51DAP/34DAP	1.00028	0.946
52DAP/51DAP	1.03198	0.689
53DAP/52DAP	0.9615	0.776
55DAP/53DAP	0.93632	0.709
57DAP/55DAP	1.09631	0.947
62DAP/57DAP	1.02591	0.902
68DAP/62DAP	0.96017	0.787
68DAP/14DAP	0.76661	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.8626	0.175

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.68015	0.226
Immature Eggplant/Mature Eggplant	1.61884
Ripe Pepper/Ripe Tomato	2.3523
Mature Eggplant/Ripe Tomato	1.87669	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01231	1
1-1-2/M82	0.96493
12-2/M82	1.01266	1
12-4/M82	0.9766
1-3/M82	1.44249
2-1-1/M82	1.01894	1
2-1/M82	N/A	N/A
2-6/M82	1.09729	0.695
3-2/M82	0.80835	0.752
4-1-1/M82	1.15584	1
4-1/M82	1.03654	1
4-3-2/M82	0.91698	0.487
4-3/M82	1.12297
5-3/M82	1.23893	0.496
6-2/M82	1.52066
6-3/M82	0.87508	0.982
7-1/M82	1.23049
7-2/M82	1.06815
9-3-2/M82	1.11233	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.50996
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.0686	1
IL12-4/WTpooled	0.86999	0.71
IL1-4/WTpooled	0.95721	1
WT/WTpooled	1.06811	0.686

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	1.27074	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97249	1
DC3000/delta hrp 6h	1.0532	1
DC3000/delta hrp 12h	1.09468	1
DC3000/delta hrp 24h	1.02893	0.69

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.79141	0.045
DC3000 delta B/DC3000 delta AB	1.04057	0.677

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.25327	1
Exp 36h	1.44463	0.693
Exp 60h	1.15061	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00355	1
Var 0h	1.15293	0.782
Var 12h I row2-row1	1.03444	0.736
Var 12h NI row2-row1	1.26032	0.649
Var 36h I row2-row1	1.30401	0.601
Var 36h NI row2-row1	0.55659	0.432
Var 60h I row2-row1	1.65266	0.543
Var 60h NI row2-row1	0.74669	0.359
Time course 0hI-0hNI	1.08338	0.799
Time course 12hI-12hNI	1.00326	0.953
Time course 36hI-36hNI	2.04056	0.005
Time course 60hI-60hNI	3.26934	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)	1.45929	0.261
transgenic ySAMdc/azygous control (breaker)	4.08484	0.178
transgenic ySAMdc/azygous control (red)	0.56761	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00461	0.886

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.90095	0.431

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.02079	1
Manapal/WT (break)	1.04269	1
Manapal/WT (red)	0.27069	0.181