Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.16.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02853	0.927
27DAP/17DAP	0.79148	0.475
39DAP/27DAP	1.33675	0.335
41DAP/39DAP	0.94945	0.773
42DAP/41DAP	1.19824	0.882
43DAP/42DAP	0.94931	0.877
47DAP/43DAP	0.73358	0.234
52DAP/47DAP	1.08421	0.934
57DAP/52DAP	1.33094	0.827

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12822	0.075
17DAP/reference	1.15189	0.27
27DAP/reference	0.89744	0.137
39DAP/reference	0.90706	0.36
41DAP/reference	1.02524	0.667
42DAP/reference	0.96489	0.196
43DAP/reference	1.0632	0.306
47DAP/reference	1.00775	0.764
52DAP/reference	0.94283	0.215
57DAP/reference	0.88694	0.124

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90468	0.277
27DAP/17DAP	1.04846	0.842
39DAP/27DAP	1.03284	0.845
41DAP/39DAP	1.10494	0.861
42DAP/41DAP	1.03751	0.904
43DAP/42DAP	0.85521	0.025
47DAP/43DAP	1.06938	0.581
52DAP/47DAP	0.75598	0.064
57DAP/52DAP	0.91018	0.463
57DAP/7DAP	0.59455	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84368	0.168
17DAP/reference	0.96788	0.447
27DAP/reference	0.96442	0.402
39DAP/reference	1.0343	1
41DAP/reference	1.01053	0.709
42DAP/reference	0.87886	0.2
43DAP/reference	0.82664	0.025
47DAP/reference	0.95122	0.383
52DAP/reference	1.09447	0.286
57DAP/reference	1.09494	0.612

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97536	0.706
17DAP/reference	0.98764	0.659
27DAP/reference	1.02164	0.79
39DAP/reference	0.99156	0.586
41DAP/reference	0.94673	0.284
42DAP/reference	0.95064	0.089
43DAP/reference	1.002	0.761
47DAP/reference	0.9403	0.038
52DAP/reference	0.91199	0.101
57DAP/reference	0.95853	0.318

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17449	0.066
17DAP/reference	1.11706	0.503
27DAP/reference	0.99619	0.763
39DAP/reference	0.9209	0.133
41DAP/reference	1.18379	0.621
42DAP/reference	0.97006	0.671
43DAP/reference	1.14338	0.59
47DAP/reference	0.93203	0.249
52DAP/reference	0.97196	0.65
57DAP/reference	0.91338	0.262

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.16181	1
26DAP/20DAP	1.19491	0.361
34DAP/26DAP	0.94006	0.848
51DAP/34DAP	0.70675	0.074
52DAP/51DAP	1.05252	0.542
53DAP/52DAP	1.02682	1
55DAP/53DAP	1.0144	0.951
57DAP/55DAP	1.08352	0.826
62DAP/57DAP	1.09533	0.868
68DAP/62DAP	0.77778	0.29
68DAP/14DAP	0.78127	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.95336	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.09767	1
Mature Green Tomato/Ripe Tomato	2.08531	0.032
Immature Eggplant/Mature Eggplant	0.83864	0.111
Ripe Pepper/Ripe Tomato	0.87214	1
Mature Eggplant/Ripe Tomato	3.54164

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.11633
12-2/M82	N/A	N/A
12-4/M82	0.81899
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	N/A	N/A
3-2/M82	0.88828
4-1-1/M82	N/A	N/A
4-1/M82	0.84074
4-3-2/M82	1.49603	1
4-3/M82	N/A	N/A
5-3/M82	1.22241	0.572
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	1.25503	1

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	0.42526
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.86046
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	0.99895	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92628	1
DC3000/delta hrp 6h	0.95362	0.95
DC3000/delta hrp 12h	0.93973	1
DC3000/delta hrp 24h	1.12389	0.76

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.29967	0.042
DC3000 delta B/DC3000 delta AB	1.36517	0.105

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02069	1
Exp 36h	0.8965	0.661
Exp 60h	1.03308	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99698	1
Var 0h	0.9208	1
Var 12h I row2-row1	0.8934	0.357
Var 12h NI row2-row1	1.06586	1
Var 36h I row2-row1	1.02174	1
Var 36h NI row2-row1	0.85865	0.432
Var 60h I row2-row1	0.84439	0.306
Var 60h NI row2-row1	0.81286	0.458
Time course 0hI-0hNI	1.05493	0.799
Time course 12hI-12hNI	1.0403	0.741
Time course 36hI-36hNI	1.45049	0.006
Time course 60hI-60hNI	2.00885	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)	1.0075	0.699
transgenic ySAMdc/azygous control (breaker)	1.47886	0.248
transgenic ySAMdc/azygous control (red)	1.11465	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03177	0.17

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.84542	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.09523	0.307
Manapal/WT (break)	0.97392	1
Manapal/WT (red)	1.43356	1