Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.6.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06093	0.904
27DAP/17DAP	1.04372	0.902
39DAP/27DAP	1.28437	0.595
41DAP/39DAP	1.01402	0.897
42DAP/41DAP	1.10713	0.929
43DAP/42DAP	0.7968	0.495
47DAP/43DAP	1.35428	0.285
52DAP/47DAP	1.13685	0.93
57DAP/52DAP	1.09151	0.946

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92451	0.352
17DAP/reference	1.00373	1
27DAP/reference	1.02954	0.847
39DAP/reference	0.97068	0.651
41DAP/reference	0.8215	0.013
42DAP/reference	1.02725	0.842
43DAP/reference	0.99124	0.84
47DAP/reference	0.9721	0.345
52DAP/reference	1.08172	0.548
57DAP/reference	1.16796	0.022

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95626	0.644
27DAP/17DAP	1.21856	0.403
39DAP/27DAP	0.97149	0.795
41DAP/39DAP	0.98129	0.986
42DAP/41DAP	1.19231	0.389
43DAP/42DAP	1.06741	0.554
47DAP/43DAP	0.95461	0.823
52DAP/47DAP	1.04013	0.868
57DAP/52DAP	1.02604	0.858
57DAP/7DAP	1.52705	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98902	0.758
17DAP/reference	1.38308	0.032
27DAP/reference	1.03577	0.974
39DAP/reference	1.04684	0.552
41DAP/reference	1.07867	0.28
42DAP/reference	0.96603	0.506
43DAP/reference	0.97555	0.44
47DAP/reference	0.93056	0.504
52DAP/reference	1.25752	0.401
57DAP/reference	1.1348	0.183

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98	0.756
17DAP/reference	0.84853	0.024
27DAP/reference	0.95069	0.438
39DAP/reference	1.00702	1
41DAP/reference	0.95293	0.242
42DAP/reference	0.90483	0.169
43DAP/reference	1.13439	0.515
47DAP/reference	1.20229	0.011
52DAP/reference	0.83202	0.06
57DAP/reference	0.997	0.754

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04644	1
17DAP/reference	1.0727	1
27DAP/reference	1.02894	0.871
39DAP/reference	1.09668	0.437
41DAP/reference	1.0628	0.734
42DAP/reference	1.02523	0.923
43DAP/reference	0.90793	0.073
47DAP/reference	1.06947	0.68
52DAP/reference	1.07817	0.813
57DAP/reference	1.12001	0.539

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.14922	0.966
26DAP/20DAP	0.8182	1
34DAP/26DAP	1.04155	1
51DAP/34DAP	0.85364	0.743
52DAP/51DAP	0.83941	1
53DAP/52DAP	0.82398	0.527
55DAP/53DAP	0.89259	0.663
57DAP/55DAP	1.15546	0.915
62DAP/57DAP	1.188	0.902
68DAP/62DAP	0.93932	0.7
68DAP/14DAP	0.73537

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.29766	0.347

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.71835
Mature Green Tomato/Ripe Tomato	0.64669	0.06
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.63206	0.293
Mature Eggplant/Ripe Tomato	0.60522	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.15224	0.877
1-1-2/M82	0.83428	0.804
12-2/M82	1.33637	0.448
12-4/M82	1.20208
1-3/M82	1.12624	1
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.81397	0.501
3-2/M82	N/A	N/A
4-1-1/M82	1.12359	1
4-1/M82	1.37565
4-3-2/M82	0.90032
4-3/M82	1.05888	1
5-3/M82	0.94143	1
6-2/M82	0.67331
6-3/M82	1.11618
7-1/M82	N/A	N/A
7-2/M82	0.81763	0.57
9-3-2/M82	0.74951	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.85696	0.321
IL2-6/WTpooled	1.08191	0.531
IL7-5/WTpooled	1.09477	0.792
IL7-3/WTpooled	0.85545	0.298
IL12-4/WTpooled	0.92075	0.71
IL1-4/WTpooled	0.98637	0.834
WT/WTpooled	0.9938	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	1.00347	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94513	1
DC3000/delta hrp 6h	0.89021	0.95
DC3000/delta hrp 12h	0.91512	1
DC3000/delta hrp 24h	1.13646	0.113

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	1.10976	1
Exp 36h	1.38201	0.489
Exp 60h	1.36556	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02708	1
Var 0h	0.90939	0.933
Var 12h I row2-row1	1.24743	0.379
Var 12h NI row2-row1	0.81752	0.494
Var 36h I row2-row1	0.95495	0.34
Var 36h NI row2-row1	1.2513	1
Var 60h I row2-row1	1.08633	1
Var 60h NI row2-row1	1.1487	0.904
Time course 0hI-0hNI	1.02934	0.852
Time course 12hI-12hNI	1.18888	0.049
Time course 36hI-36hNI	1.04868	0.975
Time course 60hI-60hNI	1.35108	0.017

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)	1.10851	0.339
transgenic ySAMdc/azygous control (breaker)	0.91533	0.251
transgenic ySAMdc/azygous control (red)	1.09824	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94116	0.06

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.84756	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.91816	1
Manapal/WT (break)	0.98624	1
Manapal/WT (red)	1.01155	1