Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.12.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91694	0.558
27DAP/17DAP	0.92406	0.857
39DAP/27DAP	1.39217	0.382
41DAP/39DAP	1.00127	0.939
42DAP/41DAP	1.66082	0.216
43DAP/42DAP	1.12811	1
47DAP/43DAP	1.30835	0.569
52DAP/47DAP	0.87502	0.646
57DAP/52DAP	1.18199	0.894

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0159	1
17DAP/reference	1.17825	0.048
27DAP/reference	1.11325	0.205
39DAP/reference	1.02988	0.722
41DAP/reference	1.11777	0.025
42DAP/reference	0.96048	0.268
43DAP/reference	1.06412	0.233
47DAP/reference	0.90265	0.032
52DAP/reference	1.08749	0.498
57DAP/reference	1.13856	0.321

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08525	0.406
27DAP/17DAP	0.90405	0.418
39DAP/27DAP	0.98923	0.953
41DAP/39DAP	1.18531	0.727
42DAP/41DAP	0.99603	0.872
43DAP/42DAP	0.95879	0.415
47DAP/43DAP	1.07124	0.681
52DAP/47DAP	0.892	0.46
57DAP/52DAP	0.91728	0.415
57DAP/7DAP	0.70716	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06712	0.705
17DAP/reference	1.04188	0.971
27DAP/reference	1.21599	0.073
39DAP/reference	0.81819	0.043
41DAP/reference	0.91482	0.326
42DAP/reference	0.78667	0.053
43DAP/reference	0.85103	0.1
47DAP/reference	0.94951	0.504
52DAP/reference	0.94711	0.304
57DAP/reference	0.85634	0.132

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24871	0.22
17DAP/reference	1.08806	0.508
27DAP/reference	1.12098	0.583
39DAP/reference	1.0277	1
41DAP/reference	1.18764	0.118
42DAP/reference	1.01083	1
43DAP/reference	1.21208	0.195
47DAP/reference	1.0064	0.643
52DAP/reference	1.01393	0.761
57DAP/reference	0.94636	0.318

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08816	0.691
17DAP/reference	0.9784	0.658
27DAP/reference	1.00996	1
39DAP/reference	1.05922	0.528
41DAP/reference	1.05069	0.916
42DAP/reference	1.18121	0.03
43DAP/reference	1.11353	0.439
47DAP/reference	1.1291	0.187
52DAP/reference	0.97661	0.663
57DAP/reference	1.24217	0.153

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.61538	0.981
26DAP/20DAP	1.51076	0.109
34DAP/26DAP	0.88562	0.338
51DAP/34DAP	0.98205	0.824
52DAP/51DAP	0.87023	1
53DAP/52DAP	1.06605	0.858
55DAP/53DAP	0.813	0.243
57DAP/55DAP	1.03722	0.947
62DAP/57DAP	0.81329	0.28
68DAP/62DAP	0.96791	0.834
68DAP/14DAP	0.74817	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.36929	0.018

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.86586	0.377
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.39804
Mature Eggplant/Ripe Tomato	0.59193	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	2.0991
12-2/M82	N/A	N/A
12-4/M82	1.57528	1
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	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.31045	0.512
4-3-2/M82	1.438	1
4-3/M82	N/A	N/A
5-3/M82	1.09748	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.33628
7-2/M82	0.9674
9-3-2/M82	1.14358	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.04489	1
IL2-6/WTpooled	0.63455	0.358
IL7-5/WTpooled	1.11851	1
IL7-3/WTpooled	0.83354	0.418
IL12-4/WTpooled	0.90251	0.71
IL1-4/WTpooled	0.85264	0.834
WT/WTpooled	1.02104	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	0.98568	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01617	1
DC3000/delta hrp 6h	2.78893	1
DC3000/delta hrp 12h	1.24956	1
DC3000/delta hrp 24h	1.03023	0.821

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.12837	0.29
DC3000 delta B/DC3000 delta AB	1.06225	0.544

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.04855	1
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01099	1
Var 0h	1.85146	0.782
Var 12h I row2-row1	0.9209	0.77
Var 12h NI row2-row1	1.20263	1
Var 36h I row2-row1	1.3153	0.339
Var 36h NI row2-row1	0.85423	0.549
Var 60h I row2-row1	0.93637	0.952
Var 60h NI row2-row1	0.82138	0.298
Time course 0hI-0hNI	0.88666	0.247
Time course 12hI-12hNI	1.05882	0.392
Time course 36hI-36hNI	1.2685	0.089
Time course 60hI-60hNI	1.15221	0.137

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)	1.14215	0.384
transgenic ySAMdc/azygous control (breaker)	0.81646	0.251
transgenic ySAMdc/azygous control (red)	0.92199	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95816	0.099

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.07786	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.77626	1
Manapal/WT (break)	1.10567	0.381
Manapal/WT (red)	1.02497	1