Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.3.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.70779	0.083
27DAP/17DAP	0.86658	0.649
39DAP/27DAP	1.31462	0.755
41DAP/39DAP	0.97424	0.839
42DAP/41DAP	1.14166	0.929
43DAP/42DAP	0.88206	0.77
47DAP/43DAP	1.02388	0.979
52DAP/47DAP	1.13517	0.861
57DAP/52DAP	0.83139	0.735

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11817	0.116
17DAP/reference	1.1727	0.384
27DAP/reference	1.42467	0.058
39DAP/reference	1.16089	0.691
41DAP/reference	0.98601	0.814
42DAP/reference	1.2682	0.002
43DAP/reference	1.20271
47DAP/reference	1.18221	0.085
52DAP/reference	1.19703	0.524
57DAP/reference	0.42666	0.021

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.66092	0.032
27DAP/17DAP	1.07358	0.775
39DAP/27DAP	1.00055	1
41DAP/39DAP	0.94607	0.822
42DAP/41DAP	1.09845	0.478
43DAP/42DAP	1.15901	0.017
47DAP/43DAP	1.00995	0.969
52DAP/47DAP	0.9946	0.959
57DAP/52DAP	0.87726	0.304
57DAP/7DAP	0.81278	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89295	0.246
17DAP/reference	0.96592	0.389
27DAP/reference	1.22799	0.035
39DAP/reference	0.80509	0.017
41DAP/reference	0.8911	0.103
42DAP/reference	1.28243	0.011
43DAP/reference	0.99393	0.637
47DAP/reference	0.94224	0.383
52DAP/reference	0.95901	0.332
57DAP/reference	0.85437	0.029

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.33485	0.094
17DAP/reference	1.30123	0.065
27DAP/reference	1.41125	0.111
39DAP/reference	1.49108	0.042
41DAP/reference	1.15492	0.471
42DAP/reference	1.46436	0.02
43DAP/reference	1.75266	0.056
47DAP/reference	1.24531	0.021
52DAP/reference	1.28885	0.279
57DAP/reference	1.18449	0.2

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97314	0.526
17DAP/reference	1.08577	0.712
27DAP/reference	0.82933	0.048
39DAP/reference	0.89835	0.083
41DAP/reference	1.24939	0.471
42DAP/reference	1.30565	0.044
43DAP/reference	1.21028	0.565
47DAP/reference	1.05212	0.372
52DAP/reference	1.10812	0.357
57DAP/reference	1.50494	0.118

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06899	0.966
26DAP/20DAP	1.23474	0.663
34DAP/26DAP	0.85585	0.771
51DAP/34DAP	1.06007	0.949
52DAP/51DAP	0.86895	1
53DAP/52DAP	0.97501	0.882
55DAP/53DAP	0.89682	0.325
57DAP/55DAP	1.34455	0.086
62DAP/57DAP	0.86344	0.028
68DAP/62DAP	0.78069	0.378
68DAP/14DAP	0.77778	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.7537	0.018

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.29563	0.068
Mature Green Tomato/Ripe Tomato	0.60388	0.02
Immature Eggplant/Mature Eggplant	1.52226	0.05
Ripe Pepper/Ripe Tomato	0.45893	0.224
Mature Eggplant/Ripe Tomato	0.65236	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.14593	0.877
1-1-2/M82	1.20486	1
12-2/M82	1.00027	1
12-4/M82	1.23489	1
1-3/M82	1.15492	1
2-1-1/M82	1.13949
2-1/M82	1.12149	0.335
2-6/M82	1.01613	1
3-2/M82	1.08723	0.717
4-1-1/M82	0.92847	1
4-1/M82	1.2979
4-3-2/M82	1.49563	0.246
4-3/M82	1.50809	0.268
5-3/M82	0.97307	1
6-2/M82	0.92526
6-3/M82	1.00666	1
7-1/M82	1.12551	1
7-2/M82	1.07819	0.385
9-3-2/M82	1.29888	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.79189	0.243
IL2-6/WTpooled	0.90522	1
IL7-5/WTpooled	1.38685	0.792
IL7-3/WTpooled	0.88425	1
IL12-4/WTpooled	1.17405	0.557
IL1-4/WTpooled	1.24737	1
WT/WTpooled	1.01239	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	1.22214	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00781	1
DC3000/delta hrp 6h	1.06249	1
DC3000/delta hrp 12h	1.09942	1
DC3000/delta hrp 24h	1.00128	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.32227	0.27
DC3000 delta B/DC3000 delta AB	1.13115	0.389

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.03281	1
Exp 36h	1.15364	1
Exp 60h	1.23223	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02591	1
Var 0h	1.03492	1
Var 12h I row2-row1	0.67694	0.338
Var 12h NI row2-row1	0.91131	0.466
Var 36h I row2-row1	0.92851	1
Var 36h NI row2-row1	1.22303	0.482
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	1.06928	0.904
Time course 0hI-0hNI	1.05548	0.662
Time course 12hI-12hNI	1.03079	0.777
Time course 36hI-36hNI	0.93471	0.095
Time course 60hI-60hNI	0.12805	0.005

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)	1.10583	0.511
transgenic ySAMdc/azygous control (breaker)	0.96798	1
transgenic ySAMdc/azygous control (red)	1.12104	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.09289	0.115

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.52016	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.99185	1
Manapal/WT (break)	0.77664	0.333
Manapal/WT (red)	0.60813	0.181