Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.9.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90858	0.456
27DAP/17DAP	0.8152	0.478
39DAP/27DAP	0.8777	0.544
41DAP/39DAP	1.05692	0.833
42DAP/41DAP	1.12941	1
43DAP/42DAP	0.92976	0.788
47DAP/43DAP	0.88945	0.634
52DAP/47DAP	1.49461	0.31
57DAP/52DAP	0.82289	0.473

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03197	0.814
17DAP/reference	0.92551	0.06
27DAP/reference	0.96501	0.444
39DAP/reference	0.98606	0.855
41DAP/reference	0.96819	0.542
42DAP/reference	0.95245	0.046
43DAP/reference	1.04051	0.403
47DAP/reference	0.9291	0.011
52DAP/reference	0.89611	0.065
57DAP/reference	0.82886	0.031

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02875	0.841
27DAP/17DAP	0.94766	0.475
39DAP/27DAP	1.00183	1
41DAP/39DAP	1.06125	0.849
42DAP/41DAP	1.04533	0.824
43DAP/42DAP	0.92882	0.224
47DAP/43DAP	0.98072	0.909
52DAP/47DAP	1.08534	0.742
57DAP/52DAP	1.07206	0.507
57DAP/7DAP	1.08035	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97761	0.361
17DAP/reference	0.98519	0.295
27DAP/reference	0.90255	0.011
39DAP/reference	0.96038	0.109
41DAP/reference	0.96358	0.247
42DAP/reference	0.98084	0.144
43DAP/reference	0.94514	0.051
47DAP/reference	0.89656	0.04
52DAP/reference	0.95742	0.023
57DAP/reference	0.92544	0.047

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08079	0.276
17DAP/reference	1.22716	0.065
27DAP/reference	0.97808	0.501
39DAP/reference	0.91152	0.032
41DAP/reference	0.98986	0.557
42DAP/reference	0.9417	0.212
43DAP/reference	1.11675	0.489
47DAP/reference	0.93133	0.194
52DAP/reference	0.9439	0.259
57DAP/reference	1.07955	0.353

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98202	0.249
17DAP/reference	1.04053	0.42
27DAP/reference	0.99157	0.657
39DAP/reference	0.99054	0.693
41DAP/reference	0.97281	0.293
42DAP/reference	0.88549	0.019
43DAP/reference	0.89097	0.064
47DAP/reference	0.97054	0.434
52DAP/reference	0.86644	0.158
57DAP/reference	0.73715	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97459	1
26DAP/20DAP	1.08589	0.785
34DAP/26DAP	0.98374	0.97
51DAP/34DAP	0.89764	0.22
52DAP/51DAP	1.02366	0.808
53DAP/52DAP	0.9769	0.929
55DAP/53DAP	1.13457	0.534
57DAP/55DAP	0.88942	0.587
62DAP/57DAP	1.01952	0.935
68DAP/62DAP	0.93907	0.668
68DAP/14DAP	1.09703	0.594

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98544	0.665

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.73703	0.058
Mature Green Tomato/Ripe Tomato	1.71727	0.331
Immature Eggplant/Mature Eggplant	0.52671	0.069
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	8.42285	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99007	0.961
1-1-2/M82	0.93414	1
12-2/M82	1.06155	1
12-4/M82	1.00235	1
1-3/M82	1.0542	0.479
2-1-1/M82	1.07309	0.689
2-1/M82	1.01254	1
2-6/M82	0.9631	1
3-2/M82	1.04507	0.463
4-1-1/M82	1.04335	1
4-1/M82	0.96119	0.737
4-3-2/M82	0.92921	1
4-3/M82	1.05496	1
5-3/M82	1.03702	1
6-2/M82	0.98845	1
6-3/M82	1.01481	1
7-1/M82	1.06513	1
7-2/M82	1.02886	1
9-3-2/M82	1.08645	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.9217	1
IL2-6/WTpooled	1.08165	0.584
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.94182	1
IL12-4/WTpooled	1.01204	1
IL1-4/WTpooled	0.99493	1
WT/WTpooled	0.95049	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	0.99815	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.86105	1
DC3000/delta hrp 6h	1.08607	0.672
DC3000/delta hrp 12h	0.95622	1
DC3000/delta hrp 24h	1.04439	0.655

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.89606	0.232
DC3000 delta B/DC3000 delta AB	0.88373	0.067

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.12158	1
Exp 36h	0.62773	0.539
Exp 60h	0.35075	0.259

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02218	1
Var 0h	0.66843	1
Var 12h I row2-row1	1.14575	0.216
Var 12h NI row2-row1	0.98786	0.82
Var 36h I row2-row1	0.99283	1
Var 36h NI row2-row1	0.897	0.478
Var 60h I row2-row1	1.36216	1
Var 60h NI row2-row1	1.05609	1
Time course 0hI-0hNI	1.00124	1
Time course 12hI-12hNI	1.0075	0.885
Time course 36hI-36hNI	0.96876	0.323
Time course 60hI-60hNI	1.1891	0.187

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)	0.90715	0.485
transgenic ySAMdc/azygous control (breaker)	2.78487	0.248
transgenic ySAMdc/azygous control (red)	1.35872	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99869	0.911

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.05583	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	3.10497	0.084
Manapal/WT (break)	12.9242	0.126
Manapal/WT (red)	8.08957	0.133