Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.3.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02055	0.867
27DAP/17DAP	1.19609	0.809
39DAP/27DAP	1.07908	0.974
41DAP/39DAP	0.95084	0.771
42DAP/41DAP	1.07694	0.994
43DAP/42DAP	1.01081	1
47DAP/43DAP	1.17112	0.497
52DAP/47DAP	0.81902	0.54
57DAP/52DAP	0.94238	0.833

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.53741	0.029
17DAP/reference	1.39005	0.585
27DAP/reference	1.81284	0.02
39DAP/reference	1.74599	0.011
41DAP/reference	1.61623	0.451
42DAP/reference	1.2329	0.504
43DAP/reference	1.87399
47DAP/reference	1.24992	0.199
52DAP/reference	1.24035	0.134
57DAP/reference	1.00405

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91565	0.311
27DAP/17DAP	1.09056	0.699
39DAP/27DAP	1.09013	0.496
41DAP/39DAP	1.00721	1
42DAP/41DAP	1.00088	0.925
43DAP/42DAP	1.06334	0.122
47DAP/43DAP	0.99882	0.998
52DAP/47DAP	0.98648	0.925
57DAP/52DAP	0.95547	0.603
57DAP/7DAP	0.90206	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04042	1
17DAP/reference	0.97761	0.108
27DAP/reference	0.99247	0.614
39DAP/reference	0.93464	0.013
41DAP/reference	0.89678	0.146
42DAP/reference	0.7935	0.01
43DAP/reference	0.88469	0.091
47DAP/reference	1.30986	0.259
52DAP/reference	0.84621	0.04
57DAP/reference	0.86365	0.054

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.38995	0.084
17DAP/reference	1.35091	0.025
27DAP/reference	1.23422	0.139
39DAP/reference	1.60422	0.013
41DAP/reference	1.31689	0.285
42DAP/reference	1.89052	0.009
43DAP/reference	1.16136	0.157
47DAP/reference	1.64739	0.02
52DAP/reference	1.55562	0.006
57DAP/reference	1.68038	0.008

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07712	0.74
17DAP/reference	1.00372	0.886
27DAP/reference	0.95114	0.067
39DAP/reference	1.03561	0.578
41DAP/reference	0.96213	0.046
42DAP/reference	0.97744	0.671
43DAP/reference	1.17019	0.343
47DAP/reference	1.10835	0.994
52DAP/reference	1.1391	0.623
57DAP/reference	2.25973	0.04

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.23592	0.966
26DAP/20DAP	0.91901	1
34DAP/26DAP	1.11446	1
51DAP/34DAP	1.16902	0.637
52DAP/51DAP	0.96525	1
53DAP/52DAP	1.04488	0.921
55DAP/53DAP	0.95041	0.675
57DAP/55DAP	1.0915	0.666
62DAP/57DAP	0.9503	0.466
68DAP/62DAP	0.87957	0.722
68DAP/14DAP	0.64251	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.88425	0.122

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.00938
Mature Green Tomato/Ripe Tomato	0.8918	0.182
Immature Eggplant/Mature Eggplant	2.26679
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.59832

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.17929	1
12-2/M82	N/A	N/A
12-4/M82	0.9365	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	0.96634
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.73338
4-3/M82	1.36812
5-3/M82	1.14774
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.82111
7-2/M82	N/A	N/A
9-3-2/M82	0.87837	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.91203	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.90624	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.00225	1
WT/WTpooled	N/A	N/A

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	1.55763	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08583	0.921
DC3000/delta hrp 6h	1.45467	1
DC3000/delta hrp 12h	0.90258	1
DC3000/delta hrp 24h	1.00999	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.06248	0.355
DC3000 delta B/DC3000 delta AB	1.02475	0.677

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	1.69147	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03987	1
Var 0h	0.55004	0.226
Var 12h I row2-row1	0.81982	0.353
Var 12h NI row2-row1	0.97506	0.906
Var 36h I row2-row1	1.12914	1
Var 36h NI row2-row1	1.0132	1
Var 60h I row2-row1	1.23301	0.562
Var 60h NI row2-row1	0.99385	1
Time course 0hI-0hNI	0.95036	0.675
Time course 12hI-12hNI	0.90146	0.11
Time course 36hI-36hNI	0.71865	0.023
Time course 60hI-60hNI	0.24554	0.005

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)	1.10805	0.408
transgenic ySAMdc/azygous control (breaker)	1.50386	0.178
transgenic ySAMdc/azygous control (red)	1.17235	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.7356	0.057

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.93825	1
Manapal/WT (break)	0.8609	1
Manapal/WT (red)	0.83487	0.36