Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.15.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95234	0.722
27DAP/17DAP	1.01728	1
39DAP/27DAP	1.428	0.52
41DAP/39DAP	0.81271	0.978
42DAP/41DAP	0.85216	1
43DAP/42DAP	1.10807	1
47DAP/43DAP	1.32344	0.497
52DAP/47DAP	0.90025	0.678
57DAP/52DAP	0.85012	0.734

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82446	0.045
17DAP/reference	1.00274	1
27DAP/reference	0.94711	0.249
39DAP/reference	1.08487	0.209
41DAP/reference	1.16497	0.111
42DAP/reference	0.97562	0.25
43DAP/reference	0.91712	0.247
47DAP/reference	0.96952	0.366
52DAP/reference	1.00693	0.791
57DAP/reference	1.09949	0.066

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99949	1
27DAP/17DAP	0.96766	0.878
39DAP/27DAP	0.91885	0.371
41DAP/39DAP	0.81836	0.53
42DAP/41DAP	0.94584	0.599
43DAP/42DAP	1.07756	0.788
47DAP/43DAP	0.8931	0.457
52DAP/47DAP	1.07182	0.718
57DAP/52DAP	0.85471	0.428
57DAP/7DAP	1.43727	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14792	0.638
17DAP/reference	1.1618	0.477
27DAP/reference	1.00815	1
39DAP/reference	1.03567	1
41DAP/reference	0.88859	0.213
42DAP/reference	0.79122	0.033
43DAP/reference	1.10918	0.603
47DAP/reference	0.9242	0.383
52DAP/reference	1.00132	0.679
57DAP/reference	0.92674	0.191

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0652	0.3
17DAP/reference	0.90115	0.124
27DAP/reference	0.98382	0.598
39DAP/reference	0.90415	0.14
41DAP/reference	1.15238	0.344
42DAP/reference	1.14802	0.281
43DAP/reference	1.16975	0.288
47DAP/reference	1.13535	0.377
52DAP/reference	1.02961	0.882
57DAP/reference	0.93122	0.169

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18583	0.616
17DAP/reference	0.99815	0.886
27DAP/reference	1.17196	0.156
39DAP/reference	1.09902	0.203
41DAP/reference	1.02131	1
42DAP/reference	0.92687	0.287
43DAP/reference	0.76748	0.092
47DAP/reference	1.08042	0.501
52DAP/reference	0.90768	0.284
57DAP/reference	1.04301	1

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.10656	0.966
26DAP/20DAP	0.794	0.244
34DAP/26DAP	1.30216
51DAP/34DAP	1.23984	0.719
52DAP/51DAP	1.04469	1
53DAP/52DAP	0.89737	0.612
55DAP/53DAP	1.24714	0.722
57DAP/55DAP	0.92074	0.684
62DAP/57DAP	1.25881	0.569
68DAP/62DAP	1.46103	0.085
68DAP/14DAP	1.66822	0.035

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.02173	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.03218
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.04683

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	0.98596
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	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.94725	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.82622
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.47628
IL2-6/WTpooled	0.75848	0.473
IL7-5/WTpooled	0.92577	1
IL7-3/WTpooled	1.20759	1
IL12-4/WTpooled	1.08361	0.839
IL1-4/WTpooled	1.01705	1
WT/WTpooled	1.09639	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	2.18652	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02555	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.91629	1
DC3000/delta hrp 24h	1.14504	0.467

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	1.17367	1
Exp 60h	1.24467	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.87896	1
Var 0h	1.07044	0.98
Var 12h I row2-row1	0.80337	0.187
Var 12h NI row2-row1	0.93487	0.82
Var 36h I row2-row1	0.91822	0.601
Var 36h NI row2-row1	1.2339
Var 60h I row2-row1	1.41272	0.543
Var 60h NI row2-row1	1.76902	0.904
Time course 0hI-0hNI	1.11725	0.852
Time course 12hI-12hNI	2.03977	0.354
Time course 36hI-36hNI	2.1474	0.009
Time course 60hI-60hNI	3.49535	0.01

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)	2.02856	1
transgenic ySAMdc/azygous control (breaker)	1.00836	1
transgenic ySAMdc/azygous control (red)	1.32937	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.88194	0.05

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.88433	0.431

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.72971	0.299
Manapal/WT (red)	0.46225	0.199