Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.20.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09595	0.67
27DAP/17DAP	1.23912	0.785
39DAP/27DAP	0.95363	0.67
41DAP/39DAP	1.40129	0.273
42DAP/41DAP	0.96221	1
43DAP/42DAP	1.12111	0.894
47DAP/43DAP	1.05054	0.856
52DAP/47DAP	0.95055	0.842
57DAP/52DAP	0.93639	0.89

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9185	0.293
17DAP/reference	0.94889	0.474
27DAP/reference	0.97719	0.623
39DAP/reference	0.95809	0.437
41DAP/reference	1.0035	1
42DAP/reference	1.73577	0.467
43DAP/reference	1.11059
47DAP/reference	1.2466	0.003
52DAP/reference	0.79411	0.014
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1571	0.164
27DAP/17DAP	1.03021	0.924
39DAP/27DAP	1.07344	0.646
41DAP/39DAP	1.02674	1
42DAP/41DAP	0.95605	0.67
43DAP/42DAP	0.98276	0.801
47DAP/43DAP	1.09174	0.779
52DAP/47DAP	1.02023	0.962
57DAP/52DAP	0.94315	0.628
57DAP/7DAP	1.58153	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87114	0.122
17DAP/reference	0.81501	0.011
27DAP/reference	0.71737	0.01
39DAP/reference	0.67675	0.011
41DAP/reference	0.75098	0.021
42DAP/reference	0.68592	0.01
43DAP/reference	0.74731	0.018
47DAP/reference	0.84253	0.168
52DAP/reference	0.73581	0.017
57DAP/reference	0.80182	0.014

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11922	0.38
17DAP/reference	1.06156	0.426
27DAP/reference	0.96504	0.537
39DAP/reference	0.96474	0.416
41DAP/reference	0.90039	0.199
42DAP/reference	0.96357	0.433
43DAP/reference	1.43631	0.077
47DAP/reference	1.08104	0.426
52DAP/reference	1.03968	0.838
57DAP/reference	1.42069	0.034

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86542	0.169
17DAP/reference	1.06508	0.956
27DAP/reference	0.72896	0.035
39DAP/reference	0.71012	0.016
41DAP/reference	0.80697	0.055
42DAP/reference	0.75012	0.032
43DAP/reference	0.7626	0.016
47DAP/reference	1.04342	0.73
52DAP/reference	0.79121	0.148
57DAP/reference	0.94035	0.453

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94242	1
26DAP/20DAP	0.96889	1
34DAP/26DAP	1.1275	1
51DAP/34DAP	1.03531	0.988
52DAP/51DAP	0.88383	1
53DAP/52DAP	0.98958	0.951
55DAP/53DAP	1.11502	0.387
57DAP/55DAP	0.95148	0.757
62DAP/57DAP	0.99129	1
68DAP/62DAP	1.03883	0.81
68DAP/14DAP	0.95991	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.73876	0.087

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.40261	0.058
Mature Green Tomato/Ripe Tomato	1.03093	0.881
Immature Eggplant/Mature Eggplant	1.32239	0.072
Ripe Pepper/Ripe Tomato	2.44565	0.258
Mature Eggplant/Ripe Tomato	3.65901	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02716	1
1-1-2/M82	0.74408	0.958
12-2/M82	1.07816	1
12-4/M82	1.00167	1
1-3/M82	0.76265	0.378
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.15931	0.594
3-2/M82	0.8324	0.752
4-1-1/M82	0.82447	0.926
4-1/M82	1.20402
4-3-2/M82	0.83985	0.458
4-3/M82	1.371	1
5-3/M82	0.99854	1
6-2/M82	0.71938
6-3/M82	0.90845
7-1/M82	1.13549
7-2/M82	1.05492
9-3-2/M82	0.88084	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.05416	0.277
IL2-6/WTpooled	1.13056	0.788
IL7-5/WTpooled	1.18281	1
IL7-3/WTpooled	0.97343	1
IL12-4/WTpooled	0.92901	0.71
IL1-4/WTpooled	1.06638	1
WT/WTpooled	1.06975	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05367	0.921
DC3000/delta hrp 6h	1.10017	1
DC3000/delta hrp 12h	1.08161	1
DC3000/delta hrp 24h	1.08299	0.567

Experiment: DC3000 effector mutants

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

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	0.85864	0.661
Exp 60h	1.17355	0.215

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98244	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.011	1
Var 12h NI row2-row1	0.80294	0.438
Var 36h I row2-row1	0.83723	0.575
Var 36h NI row2-row1	1.09837	1
Var 60h I row2-row1	1.0236	1
Var 60h NI row2-row1	1.09191	1
Time course 0hI-0hNI	1.04854	0.852
Time course 12hI-12hNI	0.97371	0.815
Time course 36hI-36hNI	1.0244	0.881
Time course 60hI-60hNI	1.22731	0.009

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)	0.94869	0.428
transgenic ySAMdc/azygous control (breaker)	0.76296	0.142
transgenic ySAMdc/azygous control (red)	0.97681	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98352	0.383

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.66673	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.96313	1
Manapal/WT (break)	0.86254	0.299
Manapal/WT (red)	0.87293	0.424