Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.17.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.69293	0.046
27DAP/17DAP	1.16032	0.849
39DAP/27DAP	0.82682	0.487
41DAP/39DAP	0.9377	0.766
42DAP/41DAP	0.97163	1
43DAP/42DAP	1.01203	0.937
47DAP/43DAP	1.0541	0.95
52DAP/47DAP	1.14108	0.869
57DAP/52DAP	0.92176	0.92

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30715	0.009
17DAP/reference	1.15198	0.161
27DAP/reference	1.12123	0.135
39DAP/reference	1.16939	0.028
41DAP/reference	1.09764	0.552
42DAP/reference	1.09484	0.037
43DAP/reference	1.09532	0.126
47DAP/reference	1.29345	0.004
52DAP/reference	1.31569	0.018
57DAP/reference	1.38659	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84267	0.289
27DAP/17DAP	1.3679	0.279
39DAP/27DAP	1.00569	1
41DAP/39DAP	0.94385	0.804
42DAP/41DAP	0.97291	0.774
43DAP/42DAP	1.01493	1
47DAP/43DAP	1.09133	0.641
52DAP/47DAP	0.87549	0.472
57DAP/52DAP	1.08644	0.695
57DAP/7DAP	2.32404	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86657	0.183
17DAP/reference	1.01705	1
27DAP/reference	0.94646	0.348
39DAP/reference	1.00968	0.745
41DAP/reference	1.13882	0.215
42DAP/reference	1.01051	0.675
43DAP/reference	1.21594	0.124
47DAP/reference	1.14438	0.292
52DAP/reference	1.10875	0.229
57DAP/reference	1.37042	0.17

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00311	0.97
17DAP/reference	0.83776	0.068
27DAP/reference	0.86687	0.104
39DAP/reference	1.13892	0.543
41DAP/reference	1.06665	0.96
42DAP/reference	1.07025	0.621
43DAP/reference	1.24024	0.392
47DAP/reference	1.15365	0.069
52DAP/reference	1.13638	0.017
57DAP/reference	0.92429	0.298

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.948	0.311
17DAP/reference	0.99645	0.839
27DAP/reference	1.26931	0.088
39DAP/reference	1.10976	0.962
41DAP/reference	1.05372	0.657
42DAP/reference	1.0668	0.521
43DAP/reference	0.82176	0.092
47DAP/reference	0.91955	0.296
52DAP/reference	0.93933	0.464
57DAP/reference	1.19057	0.111

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08894	0.966
26DAP/20DAP	0.9474	1
34DAP/26DAP	0.84772	0.728
51DAP/34DAP	1.24755	0.121
52DAP/51DAP	1.02065	1
53DAP/52DAP	0.76777	0.365
55DAP/53DAP	0.93933	0.709
57DAP/55DAP	1.32448	0.448
62DAP/57DAP	0.85247	0.466
68DAP/62DAP	0.98171	0.863
68DAP/14DAP	0.72477	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.39008	0.092

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.23651	0.113
Mature Green Tomato/Ripe Tomato	0.93915	0.522
Immature Eggplant/Mature Eggplant	1.16485	0.181
Ripe Pepper/Ripe Tomato	1.84336
Mature Eggplant/Ripe Tomato	1.80905	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00531	1
1-1-2/M82	0.89267
12-2/M82	N/A	N/A
12-4/M82	1.0618	1
1-3/M82	1.25075
2-1-1/M82	1.11911
2-1/M82	0.93664	1
2-6/M82	1.07108	0.594
3-2/M82	0.97482
4-1-1/M82	0.86628
4-1/M82	1.15976	1
4-3-2/M82	N/A	N/A
4-3/M82	1.0772	1
5-3/M82	1.00039	1
6-2/M82	N/A	N/A
6-3/M82	0.99197	1
7-1/M82	0.94713	0.466
7-2/M82	0.89514	0.881
9-3-2/M82	1.45757

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.78132	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.95231	1
IL12-4/WTpooled	1.06006	0.891
IL1-4/WTpooled	0.90593	0.699
WT/WTpooled	1.0323	1

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	1.22931	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00886	1
DC3000/delta hrp 6h	0.8974	0.95
DC3000/delta hrp 12h	1.026	1
DC3000/delta hrp 24h	1.08234	0.502

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.40212
DC3000 delta B/DC3000 delta AB	0.72427

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00628	1
Exp 36h	1.01631	1
Exp 60h	1.0765	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98132	1
Var 0h	1.08846	0.936
Var 12h I row2-row1	1.141	0.406
Var 12h NI row2-row1	1.14072	0.649
Var 36h I row2-row1	1.03605	1
Var 36h NI row2-row1	0.97911	0.852
Var 60h I row2-row1	0.93486	0.952
Var 60h NI row2-row1	0.85589	0.756
Time course 0hI-0hNI	1.0321	1
Time course 12hI-12hNI	0.96858	0.738
Time course 36hI-36hNI	1.25888	0.039
Time course 60hI-60hNI	1.55736	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)	1.02891	0.482
transgenic ySAMdc/azygous control (breaker)	0.95564	1
transgenic ySAMdc/azygous control (red)	0.93351	1

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	0.76978	0.255

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.7326	0.172
Manapal/WT (break)	0.92672	1
Manapal/WT (red)	0.66727	0.187