Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.6.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.33189	0.272
27DAP/17DAP	0.79709	0.475
39DAP/27DAP	1.26881	0.565
41DAP/39DAP	0.91555	0.636
42DAP/41DAP	1.17575	0.941
43DAP/42DAP	1.73131	0.101
47DAP/43DAP	0.95895	0.729
52DAP/47DAP	1.03555	0.98
57DAP/52DAP	0.97954	0.974

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90979	0.162
17DAP/reference	0.90264	0.138
27DAP/reference	1.05525	0.847
39DAP/reference	0.98123	0.734
41DAP/reference	0.94741	0.341
42DAP/reference	0.9739	0.287
43DAP/reference	1.0866	0.518
47DAP/reference	1.13133	0.119
52DAP/reference	1.01075	0.791
57DAP/reference	1.03674	0.952

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25946
27DAP/17DAP	0.58966
39DAP/27DAP	1.11781	0.862
41DAP/39DAP	1.1507	0.781
42DAP/41DAP	1.31489
43DAP/42DAP	1.86105
47DAP/43DAP	3.38412
52DAP/47DAP	N/A	N/A
57DAP/52DAP	0.60253	0.411
57DAP/7DAP	1.14938

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96703	0.55
17DAP/reference	0.8409	0.192
27DAP/reference	0.78418
39DAP/reference	1.24081	0.538
41DAP/reference	1.10539	0.812
42DAP/reference	0.98332	0.531
43DAP/reference	1.2733	0.364
47DAP/reference	0.83117	0.383
52DAP/reference	0.93238	0.232
57DAP/reference	1.12785	0.468

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89994	0.306
17DAP/reference	0.87826	0.095
27DAP/reference	0.87603	0.108
39DAP/reference	0.98385	0.526
41DAP/reference	0.95712	0.384
42DAP/reference	0.87917	0.108
43DAP/reference	0.96793	0.561
47DAP/reference	0.99765	0.714
52DAP/reference	0.91299	0.111
57DAP/reference	0.88009	0.144

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08352
17DAP/reference	0.90328	0.508
27DAP/reference	0.90063
39DAP/reference	0.82465
41DAP/reference	0.85358	0.035
42DAP/reference	1.11662	0.55
43DAP/reference	1.07352	0.803
47DAP/reference	1.02824	1
52DAP/reference	0.86615	0.277
57DAP/reference	1.06124	0.531

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.51669	0.916
26DAP/20DAP	N/A	N/A
34DAP/26DAP	2.42501	1
51DAP/34DAP	0.84472	0.513
52DAP/51DAP	4.08401	0.662
53DAP/52DAP	0.78331	0.595
55DAP/53DAP	1.49548	0.876
57DAP/55DAP	1.14464	0.057
62DAP/57DAP	1.23245	0.8
68DAP/62DAP	1.18343	0.899
68DAP/14DAP	0.79331	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.38172	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.62711	0.026
Immature Eggplant/Mature Eggplant	1.02998
Ripe Pepper/Ripe Tomato	0.32983
Mature Eggplant/Ripe Tomato	0.2826	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.0905	0.877
1-1-2/M82	1.15241	1
12-2/M82	0.91496	0.955
12-4/M82	0.99222	1
1-3/M82	0.91506	0.378
2-1-1/M82	1.18707
2-1/M82	0.84872	0.519
2-6/M82	1.18456	0.405
3-2/M82	1.01941	1
4-1-1/M82	1.12924	1
4-1/M82	1.62357	0.429
4-3-2/M82	1.03444	1
4-3/M82	1.41282	1
5-3/M82	0.98855	1
6-2/M82	0.71403
6-3/M82	0.90991	1
7-1/M82	0.90235	0.803
7-2/M82	1.1109	0.385
9-3-2/M82	1.3174	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.03879	1
IL2-6/WTpooled	0.78252	0.473
IL7-5/WTpooled	0.56135	0.304
IL7-3/WTpooled	1.00848	1
IL12-4/WTpooled	0.93079	0.71
IL1-4/WTpooled	0.95654	0.834
WT/WTpooled	0.98529	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05525	0.921
DC3000/delta hrp 6h	0.91508	0.95
DC3000/delta hrp 12h	0.87609	1
DC3000/delta hrp 24h	1.22696	0.129

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	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	0.37257	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.12137	0.312
transgenic ySAMdc/azygous control (breaker)	1.31211	0.248
transgenic ySAMdc/azygous control (red)	1.13524	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04242	0.261

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.04093	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.92731	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.9825	0.863