Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.20.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98249	0.76
27DAP/17DAP	1.15575	0.873
39DAP/27DAP	0.76595	0.443
41DAP/39DAP	1.50821	0.416
42DAP/41DAP	1.15683	1
43DAP/42DAP	1.07149	0.93
47DAP/43DAP	1.20429	0.965
52DAP/47DAP	1.10888	1
57DAP/52DAP	1.09076	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23746	0.029
17DAP/reference	1.04774	0.492
27DAP/reference	1.05616	0.306
39DAP/reference	1.00959	0.901
41DAP/reference	1.06857	0.48
42DAP/reference	1.14051	0.166
43DAP/reference	0.90302	0.08
47DAP/reference	1.06951	0.448
52DAP/reference	0.90028	0.25
57DAP/reference	1.0418	0.762

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09084	0.961
27DAP/17DAP	0.969	0.887
39DAP/27DAP	1.02755	0.919
41DAP/39DAP	1.28935	0.135
42DAP/41DAP	0.77221	0.132
43DAP/42DAP	1.13308	0.162
47DAP/43DAP	1.01918	0.963
52DAP/47DAP	1.56101	0.1
57DAP/52DAP	1.12507	0.688
57DAP/7DAP	1.17652	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97007	0.55
17DAP/reference	0.96608	0.389
27DAP/reference	1.06673	0.301
39DAP/reference	0.86046	0.109
41DAP/reference	0.8204	0.103
42DAP/reference	0.83744	0.136
43DAP/reference	1.01722	0.637
47DAP/reference	0.84156	0.222
52DAP/reference	0.85559	0.179
57DAP/reference	1.24893	0.117

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31298	0.315
17DAP/reference	0.99152	0.711
27DAP/reference	0.9478	0.576
39DAP/reference	0.86008	0.074
41DAP/reference	0.97241	0.441
42DAP/reference	1.16609	0.247
43DAP/reference	1.54312	0.373
47DAP/reference	1.13887	0.603
52DAP/reference	1.05412	0.702
57DAP/reference	1.23178	0.146

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03996	0.74
17DAP/reference	0.92794	0.389
27DAP/reference	0.99877	0.843
39DAP/reference	1.07866	0.512
41DAP/reference	0.98863	0.754
42DAP/reference	0.92013	0.445
43DAP/reference	1.0166	0.858
47DAP/reference	1.00263	0.708
52DAP/reference	1.03754	0.862
57DAP/reference	1.06054	0.673

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.14971	0.966
26DAP/20DAP	1.18206	1
34DAP/26DAP	1.05324	1
51DAP/34DAP	0.74509
52DAP/51DAP	0.95302	1
53DAP/52DAP	0.65196	0.111
55DAP/53DAP	1.23901	0.82
57DAP/55DAP	0.97308	0.644
62DAP/57DAP	0.89585	0.871
68DAP/62DAP	2.55604	0.04
68DAP/14DAP	1.00856	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.44523	0.015

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.75545	0.377
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.14066	0.224
Mature Eggplant/Ripe Tomato	0.22041	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97954	0.944
1-1-2/M82	0.98653	1
12-2/M82	3.42146	0.519
12-4/M82	0.79811	1
1-3/M82	0.641	0.33
2-1-1/M82	0.90581
2-1/M82	N/A	N/A
2-6/M82	1.20626	0.695
3-2/M82	0.97689	1
4-1-1/M82	N/A	N/A
4-1/M82	0.68373
4-3-2/M82	0.7814
4-3/M82	1.12545	1
5-3/M82	0.58342	0.642
6-2/M82	1.19402	1
6-3/M82	0.73757	1
7-1/M82	0.72425	1
7-2/M82	0.96403	1
9-3-2/M82	0.74605

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.90603	0.321
IL2-6/WTpooled	0.87565	1
IL7-5/WTpooled	1.04459	1
IL7-3/WTpooled	1.0306	1
IL12-4/WTpooled	0.77128	0.71
IL1-4/WTpooled	0.74572	0.435
WT/WTpooled	0.95436	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	1.10449	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02866	0.921
DC3000/delta hrp 6h	1.49295	0.533
DC3000/delta hrp 12h	1.06289	1
DC3000/delta hrp 24h	1.11029	0.633

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.95472	0.042
DC3000 delta B/DC3000 delta AB	1.19319	0.368

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.30912	1
Exp 36h	1.31771	0.693
Exp 60h	1.33427	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00492	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.28804	0.196
Var 12h NI row2-row1	0.9881	1
Var 36h I row2-row1	1.00194	1
Var 36h NI row2-row1	1.12456	0.482
Var 60h I row2-row1	0.92849	0.952
Var 60h NI row2-row1	0.80504	0.301
Time course 0hI-0hNI	1.00496	1
Time course 12hI-12hNI	2.11458	0.005
Time course 36hI-36hNI	1.98704	0.004
Time course 60hI-60hNI	2.32328	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)	1.63065	0.325
transgenic ySAMdc/azygous control (breaker)	0.52154	0.131
transgenic ySAMdc/azygous control (red)	1.25708	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02428	0.471

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.46641	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.85188	1
Manapal/WT (break)	0.61259	0.333
Manapal/WT (red)	0.67397	0.274