Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.19.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.72273	0.11
27DAP/17DAP	1.16661	0.849
39DAP/27DAP	1.30439	0.553
41DAP/39DAP	1.07667	0.663
42DAP/41DAP	1.129	0.937
43DAP/42DAP	1.01951	0.931
47DAP/43DAP	0.89784	0.652
52DAP/47DAP	1.26947	0.819
57DAP/52DAP	0.91856	0.919

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20867	0.032
17DAP/reference	1.2219	0.015
27DAP/reference	1.10047	0.205
39DAP/reference	1.13658	0.318
41DAP/reference	1.39445	0.018
42DAP/reference	1.27095	0.001
43DAP/reference	1.01118	0.942
47DAP/reference	1.22368	0.001
52DAP/reference	1.27383	0.036
57DAP/reference	0.9098	0.165

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0731	0.547
27DAP/17DAP	1.29767
39DAP/27DAP	1.00185	0.874
41DAP/39DAP	0.96433	0.875
42DAP/41DAP	1.07681	0.708
43DAP/42DAP	1.00528	0.83
47DAP/43DAP	1.03034	0.865
52DAP/47DAP	0.95348	0.77
57DAP/52DAP	0.95569	0.514
57DAP/7DAP	0.92516

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.44414	0.311
17DAP/reference	3.58186	0.007
27DAP/reference	2.72159	0.006
39DAP/reference	3.48919	0.005
41DAP/reference	3.57037	0.012
42DAP/reference	4.37823	0.007
43DAP/reference	5.01413	0.006
47DAP/reference	2.89546	0.279
52DAP/reference	4.22305	0.007
57DAP/reference	3.36417	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22589	0.077
17DAP/reference	1.25884	0.107
27DAP/reference	1.31958	0.042
39DAP/reference	1.46879	0.013
41DAP/reference	1.17537	0.277
42DAP/reference	1.41651	0.086
43DAP/reference	0.88155	0.37
47DAP/reference	1.40475	0.008
52DAP/reference	1.38594	0.006
57DAP/reference	1.36248	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.91946	0.015
17DAP/reference	1.53561	0.531
27DAP/reference	3.9369	0.02
39DAP/reference	3.8445	0.013
41DAP/reference	2.42984	0.027
42DAP/reference	3.18174	0.009
43DAP/reference	3.36636	0.014
47DAP/reference	1.05798	0.562
52DAP/reference	4.24995	0.038
57DAP/reference	2.0959	0.401

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.93229	1
26DAP/20DAP	N/A	N/A
34DAP/26DAP	0.97655	0.945
51DAP/34DAP	1.26742	0.215
52DAP/51DAP	0.64834	0.151
53DAP/52DAP	N/A	N/A
55DAP/53DAP	1.09632	0.911
57DAP/55DAP	1.20487	0.474
62DAP/57DAP	1.07422	0.935
68DAP/62DAP	0.89225	0.722
68DAP/14DAP	0.80603	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98554	0.607

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.9636	0.591
Mature Green Tomato/Ripe Tomato	0.3097	0.017
Immature Eggplant/Mature Eggplant	1.3945	0.054
Ripe Pepper/Ripe Tomato	0.86495	1
Mature Eggplant/Ripe Tomato	0.83955	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97978	0.961
1-1-2/M82	1.05741	1
12-2/M82	0.98469	1
12-4/M82	0.97691	0.619
1-3/M82	1.03879	1
2-1-1/M82	0.98317	1
2-1/M82	1.46131	1
2-6/M82	0.84215	1
3-2/M82	1.00969
4-1-1/M82	1.04167	0.966
4-1/M82	0.85187
4-3-2/M82	1.04601
4-3/M82	1.0029	1
5-3/M82	1.03429	0.455
6-2/M82	1.01139	1
6-3/M82	0.96309	1
7-1/M82	0.95491	1
7-2/M82	1.0787	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	0.99076	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.92	1
IL12-4/WTpooled	1.0649	1
IL1-4/WTpooled	0.88114
WT/WTpooled	1.09565	0.999

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	1.09998	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10692	0.846
DC3000/delta hrp 6h	0.86606	0.95
DC3000/delta hrp 12h	1.04508	1
DC3000/delta hrp 24h	1.02995	0.69

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.32891	0.05
DC3000 delta B/DC3000 delta AB	1.13118	0.353

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99947	1
Exp 36h	1.20109	1
Exp 60h	1.32483	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99867	1
Var 0h	0.8332	0.933
Var 12h I row2-row1	1.09921	0.189
Var 12h NI row2-row1	1.18145	1
Var 36h I row2-row1	0.94844	1
Var 36h NI row2-row1	0.96004	0.791
Var 60h I row2-row1	1.13511	1
Var 60h NI row2-row1	1.27505	0.904
Time course 0hI-0hNI	1.06376	0.833
Time course 12hI-12hNI	0.99409	1
Time course 36hI-36hNI	0.83952	0.046
Time course 60hI-60hNI	1.16701	0.033

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)	0.85535	0.299
transgenic ySAMdc/azygous control (breaker)	0.78341	0.15
transgenic ySAMdc/azygous control (red)	1.0408	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96782	0.115

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.99125	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.92005	1
Manapal/WT (break)	1.15338	1
Manapal/WT (red)	0.64814	0.188