Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.20.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11002	0.798
27DAP/17DAP	1.09224	0.881
39DAP/27DAP	0.73846	0.399
41DAP/39DAP	1.32688	0.233
42DAP/41DAP	1.01983	0.992
43DAP/42DAP	1.18402	0.933
47DAP/43DAP	1.06389	0.999
52DAP/47DAP	1.11037	0.886
57DAP/52DAP	1.07261	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03416	0.441
17DAP/reference	1.08574
27DAP/reference	1.116	0.111
39DAP/reference	0.92888
41DAP/reference	1.0791	0.714
42DAP/reference	1.58108
43DAP/reference	0.6772	0.273
47DAP/reference	1.04105	0.764
52DAP/reference	0.94367	0.33
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98275	0.75
27DAP/17DAP	1.02022	0.942
39DAP/27DAP	1.01151	0.845
41DAP/39DAP	1.0113	1
42DAP/41DAP	1.04043	0.719
43DAP/42DAP	0.97376	0.538
47DAP/43DAP	0.93716	0.382
52DAP/47DAP	1.01389	0.956
57DAP/52DAP	0.98155	0.7
57DAP/7DAP	1.03735	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88776	0.091
17DAP/reference	0.89335	0.025
27DAP/reference	0.89897	0.042
39DAP/reference	0.97951	0.354
41DAP/reference	0.9886	0.469
42DAP/reference	0.96003	0.289
43DAP/reference	0.93626	0.047
47DAP/reference	0.91113	0.128
52DAP/reference	0.93321	0.012
57DAP/reference	0.90532	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04457	0.449
17DAP/reference	0.9696	0.307
27DAP/reference	0.89142	0.229
39DAP/reference	0.86954	0.099
41DAP/reference	0.83897	0.07
42DAP/reference	0.78504	0.067
43DAP/reference	0.99924	0.831
47DAP/reference	0.90034	0.009
52DAP/reference	0.9879	0.576
57DAP/reference	1.10097	0.26

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98585	0.526
17DAP/reference	0.98209	0.681
27DAP/reference	0.96662	0.174
39DAP/reference	0.92248	0.05
41DAP/reference	0.96891	0.185
42DAP/reference	0.82511	0.108
43DAP/reference	0.8707	0.106
47DAP/reference	0.96308	0.452
52DAP/reference	0.83305	0.14
57DAP/reference	0.58709	0.028

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00165	1
26DAP/20DAP	0.90457	0.512
34DAP/26DAP	0.98852	1
51DAP/34DAP	0.93052	0.64
52DAP/51DAP	1.03514	0.708
53DAP/52DAP	1.07817	0.83
55DAP/53DAP	0.90833	0.417
57DAP/55DAP	1.08943	0.793
62DAP/57DAP	1.02028	0.935
68DAP/62DAP	0.85132	0.579
68DAP/14DAP	1.33938	0.295

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.95397	0.422

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.15508	0.417
Mature Green Tomato/Ripe Tomato	0.82769	0.2
Immature Eggplant/Mature Eggplant	1.13831	0.19
Ripe Pepper/Ripe Tomato	1.23059	1
Mature Eggplant/Ripe Tomato	1.07426	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99705	1
1-1-2/M82	0.90452	0.958
12-2/M82	1.00133	1
12-4/M82	1.07889	1
1-3/M82	0.88403	0.501
2-1-1/M82	1.08029	0.764
2-1/M82	1.28475
2-6/M82	0.987	1
3-2/M82	0.88492	1
4-1-1/M82	1.03579
4-1/M82	0.78066	0.867
4-3-2/M82	1.18363
4-3/M82	0.81585	1
5-3/M82	0.96917	1
6-2/M82	0.88391	1
6-3/M82	1.1658	1
7-1/M82	0.95144	0.803
7-2/M82	1.07267	1
9-3-2/M82	0.83703	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.27623	0.365
IL2-6/WTpooled	0.92681	1
IL7-5/WTpooled	1.00963
IL7-3/WTpooled	1.17209	1
IL12-4/WTpooled	1.08435	0.646
IL1-4/WTpooled	0.87476	0.444
WT/WTpooled	1.10769	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	1.20928	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07858	0.921
DC3000/delta hrp 6h	1.02574	0.95
DC3000/delta hrp 12h	1.05852	1
DC3000/delta hrp 24h	1.09662	0.422

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.08906	0.121
DC3000 delta B/DC3000 delta AB	1.06477	0.453

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.28691	1
Exp 36h	0.99359	1
Exp 60h	1.12966	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98398	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.08233	0.379
Var 12h NI row2-row1	1.11871	1
Var 36h I row2-row1	1.09271	1
Var 36h NI row2-row1	1.08135	1
Var 60h I row2-row1	1.19909	0.562
Var 60h NI row2-row1	1.04614	1
Time course 0hI-0hNI	1.0426	0.799
Time course 12hI-12hNI	0.98611	0.914
Time course 36hI-36hNI	0.97184	0.46
Time course 60hI-60hNI	1.14347	0.017

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)	1.56804	0.212
transgenic ySAMdc/azygous control (breaker)	1.21039	1
transgenic ySAMdc/azygous control (red)	0.95211	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03297	0.223

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.06966	1
Manapal/WT (break)	0.98149	1
Manapal/WT (red)	0.71205	0.187