Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.16.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.44282	0.067
27DAP/17DAP	1.05243	1
39DAP/27DAP	0.7121	0.495
41DAP/39DAP	0.89646	0.611
42DAP/41DAP	1.12411	0.978
43DAP/42DAP	0.80532	0.741
47DAP/43DAP	0.98254	0.89
52DAP/47DAP	1.40281	0.608
57DAP/52DAP	0.9004	0.869

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91864	0.182
17DAP/reference	1.02817	0.717
27DAP/reference	1.07351	0.529
39DAP/reference	1.14846	0.14
41DAP/reference	1.00325	1
42DAP/reference	1.00026	0.628
43DAP/reference	1.41085	0.009
47DAP/reference	1.06917	0.433
52DAP/reference	1.02168	0.791
57DAP/reference	1.03526	0.802

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83954	0.158
27DAP/17DAP	1.0832	0.817
39DAP/27DAP	1.00009	1
41DAP/39DAP	1.21062	0.65
42DAP/41DAP	0.85479	0.284
43DAP/42DAP	0.95916	0.801
47DAP/43DAP	0.98283	0.933
52DAP/47DAP	1.03153	0.927
57DAP/52DAP	0.93674	0.603
57DAP/7DAP	0.89294	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7235	0.073
17DAP/reference	0.7924	0.039
27DAP/reference	1.04072	0.664
39DAP/reference	0.92788	0.264
41DAP/reference	0.94468	0.311
42DAP/reference	0.9834	0.554
43DAP/reference	0.91474	0.21
47DAP/reference	0.81904	0.168
52DAP/reference	0.88414	0.179
57DAP/reference	1.03132	0.654

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86051	0.09
17DAP/reference	0.88735	0.08
27DAP/reference	1.00748	0.711
39DAP/reference	0.91366	0.33
41DAP/reference	0.97307	0.403
42DAP/reference	0.99314	0.655
43DAP/reference	1.35405	0.284
47DAP/reference	1.04024	0.426
52DAP/reference	0.96262	0.5
57DAP/reference	1.00508	0.834

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.72513	0.031
17DAP/reference	0.95789	0.55
27DAP/reference	0.89383	0.089
39DAP/reference	0.92954	0.179
41DAP/reference	1.00075	1
42DAP/reference	1.03293	0.627
43DAP/reference	0.86345	0.165
47DAP/reference	1.17171	0.057
52DAP/reference	0.88004	0.327
57DAP/reference	0.95067	0.416

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.14795	0.966
26DAP/20DAP	0.83033	0.512
34DAP/26DAP	1.67439	0.304
51DAP/34DAP	1.00513	0.77
52DAP/51DAP	1.06224	0.915
53DAP/52DAP	0.72063	0.25
55DAP/53DAP	1.36333	0.229
57DAP/55DAP	1.38462	0.728
62DAP/57DAP	0.62849	0.028
68DAP/62DAP	1.28435	0.878
68DAP/14DAP	0.98581

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96847	0.607

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.41209
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.18061	0.224
Mature Eggplant/Ripe Tomato	1.40262	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.97643	1
12-2/M82	N/A	N/A
12-4/M82	0.99883	1
1-3/M82	1.14651	1
2-1-1/M82	0.67735	0.565
2-1/M82	0.70099
2-6/M82	1.0263	1
3-2/M82	1.29434	0.549
4-1-1/M82	1.01716	1
4-1/M82	0.82891
4-3-2/M82	N/A	N/A
4-3/M82	1.25944	0.268
5-3/M82	0.86738	0.419
6-2/M82	N/A	N/A
6-3/M82	0.93692
7-1/M82	0.80648
7-2/M82	0.92131
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	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
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	1.10659	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96266	1
DC3000/delta hrp 6h	0.95712	0.95
DC3000/delta hrp 12h	1.05201	1
DC3000/delta hrp 24h	0.60549	0.034

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	0.94917	1
Exp 36h	0.66626	0.406
Exp 60h	0.76577	0.32

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00951	1
Var 0h	0.67072	0.259
Var 12h I row2-row1	1.04294	0.736
Var 12h NI row2-row1	0.9996	1
Var 36h I row2-row1	0.85401	1
Var 36h NI row2-row1	0.68431	0.584
Var 60h I row2-row1	0.84986	0.582
Var 60h NI row2-row1	0.9242	0.572
Time course 0hI-0hNI	1.11115	0.377
Time course 12hI-12hNI	1.42753	0.014
Time course 36hI-36hNI	1.69412	0.007
Time course 60hI-60hNI	2.80218	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)	1.0928	0.261
transgenic ySAMdc/azygous control (breaker)	0.55378	0.134
transgenic ySAMdc/azygous control (red)	0.80747	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99058	0.609

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.12506	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.19296	0.307
Manapal/WT (break)	1.2554	1
Manapal/WT (red)	0.84921	0.607