Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.16.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.21593	0.014
27DAP/17DAP	1.06093	0.881
39DAP/27DAP	0.75732	0.241
41DAP/39DAP	1.10092	0.387
42DAP/41DAP	1.18624	0.608
43DAP/42DAP	1.12735	1
47DAP/43DAP	1.15982	0.733
52DAP/47DAP	1.79531	0.581
57DAP/52DAP	1.41065	0.962

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.43368	0.007
17DAP/reference	0.88661	0.041
27DAP/reference	0.93089	0.369
39DAP/reference	0.90315	0.085
41DAP/reference	0.83057	0.154
42DAP/reference	0.94435	0.107
43DAP/reference	0.82949	0.155
47DAP/reference	0.94397	0.137
52DAP/reference	0.8795	0.075
57DAP/reference	1.14179	0.05

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.44134	0.028
27DAP/17DAP	0.98955	0.969
39DAP/27DAP	0.94406	0.668
41DAP/39DAP	1.06711	1
42DAP/41DAP	0.90022	0.374
43DAP/42DAP	1.12407	0.478
47DAP/43DAP	1.13821	0.889
52DAP/47DAP	1.30307	0.616
57DAP/52DAP	1.20689	0.718
57DAP/7DAP	0.38221

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97069	0.495
17DAP/reference	0.91041	0.22
27DAP/reference	0.89004	0.071
39DAP/reference	0.70017	0.011
41DAP/reference	0.6216	0.022
42DAP/reference	0.73147	0.012
43DAP/reference	0.71689	0.013
47DAP/reference	0.84031	0.057
52DAP/reference	0.87273	0.179
57DAP/reference	0.93018	0.24

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16967	0.151
17DAP/reference	0.86194	0.072
27DAP/reference	0.87576	0.064
39DAP/reference	0.96595	0.442
41DAP/reference	1.00326	0.666
42DAP/reference	0.99237	0.534
43DAP/reference	1.01414	0.721
47DAP/reference	1.01049	0.714
52DAP/reference	0.96063	0.38
57DAP/reference	0.95231	0.519

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1043	0.588
17DAP/reference	0.93148	0.508
27DAP/reference	0.91451	0.286
39DAP/reference	0.80926	0.04
41DAP/reference	0.95184	0.459
42DAP/reference	0.96519	0.552
43DAP/reference	0.8137	0.098
47DAP/reference	0.91941	0.24
52DAP/reference	0.89821	0.36
57DAP/reference	1.17321	0.2

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.22143	0.966
26DAP/20DAP	1.03925	1
34DAP/26DAP	1.25329	0.542
51DAP/34DAP	0.97463	0.791
52DAP/51DAP	1.18639	0.202
53DAP/52DAP	1.10025	0.819
55DAP/53DAP	1.1271	0.976
57DAP/55DAP	1.25444	0.461
62DAP/57DAP	0.94707	0.871
68DAP/62DAP	1.25555	0.707
68DAP/14DAP	0.79457	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.94075	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	4.09276
Mature Green Tomato/Ripe Tomato	0.88017
Immature Eggplant/Mature Eggplant	1.17911	0.055
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	4.44133	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.85872
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.95878	1
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.70485
3-2/M82	0.6891
4-1-1/M82	N/A	N/A
4-1/M82	1.68932
4-3-2/M82	N/A	N/A
4-3/M82	0.23384
5-3/M82	0.92774	0.49
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.84937
7-2/M82	N/A	N/A
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	N/A	N/A
IL7-5/WTpooled	0.95997
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.13697	1
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	0.75445	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.86956	1
DC3000/delta hrp 6h	1.77842	0.978
DC3000/delta hrp 12h	0.9237	1
DC3000/delta hrp 24h	1.01705	0.924

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.99032	1
DC3000 delta B/DC3000 delta AB	0.70069	0.055

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.86222	1
Exp 36h	0.97726	0.943
Exp 60h	0.81128	0.454

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02433	1
Var 0h	0.50796	1
Var 12h I row2-row1	1.2212	0.379
Var 12h NI row2-row1	0.75401	0.367
Var 36h I row2-row1	0.55123	0.202
Var 36h NI row2-row1	0.74837	0.308
Var 60h I row2-row1	1.23799	0.562
Var 60h NI row2-row1	1.15137	0.904
Time course 0hI-0hNI	0.78454	0.047
Time course 12hI-12hNI	0.78291	0.146
Time course 36hI-36hNI	0.55557	0.041
Time course 60hI-60hNI	0.21597	0.006

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)	1.94772	0.654
transgenic ySAMdc/azygous control (breaker)	1.34817	1
transgenic ySAMdc/azygous control (red)	1.25935	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00435	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.8074	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.58305	0.172
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.05469	0.222