Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.9.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05798	0.932
27DAP/17DAP	0.88943	0.741
39DAP/27DAP	1.47727	0.325
41DAP/39DAP	0.9979	0.59
42DAP/41DAP	1.54652	0.136
43DAP/42DAP	2.92729	0.019
47DAP/43DAP	1.77285	0.261
52DAP/47DAP	0.76798	0.407
57DAP/52DAP	0.71745	0.765

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03314	1
17DAP/reference	1.00325	1
27DAP/reference	0.98097	0.484
39DAP/reference	1.06973	0.504
41DAP/reference	1.05683	0.48
42DAP/reference	0.92808	0.075
43DAP/reference	0.93209	0.222
47DAP/reference	1.00528	1
52DAP/reference	0.76547	0.049
57DAP/reference	0.92284	0.21

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98222	0.716
27DAP/17DAP	1.01544	0.957
39DAP/27DAP	1.02299	0.663
41DAP/39DAP	1.03393	0.853
42DAP/41DAP	0.95425	0.612
43DAP/42DAP	1.03954	0.324
47DAP/43DAP	1.03898	0.765
52DAP/47DAP	1.01011	0.979
57DAP/52DAP	1.05686	0.632
57DAP/7DAP	1.08668	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86504	0.076
17DAP/reference	0.88041	0.019
27DAP/reference	0.79804	0.015
39DAP/reference	0.85537	0.011
41DAP/reference	0.7604	0.016
42DAP/reference	0.74658	0.011
43DAP/reference	0.83625	0.014
47DAP/reference	0.83933	0.101
52DAP/reference	0.72145	0.015
57DAP/reference	0.76288	0.015

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08762	0.141
17DAP/reference	1.04668	0.518
27DAP/reference	0.91024	0.304
39DAP/reference	0.97719	0.485
41DAP/reference	0.90412	0.098
42DAP/reference	0.86743	0.014
43DAP/reference	0.99264	0.761
47DAP/reference	0.92138	0.214
52DAP/reference	1.00902	0.988
57DAP/reference	1.01519	0.834

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87176	0.119
17DAP/reference	0.89066	0.217
27DAP/reference	0.87989	0.04
39DAP/reference	0.85839	0.018
41DAP/reference	0.91107	0.132
42DAP/reference	0.8034	0.025
43DAP/reference	0.855	0.165
47DAP/reference	0.83855	0.183
52DAP/reference	0.87966	0.2
57DAP/reference	0.51629	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06931	0.752
26DAP/20DAP	1.00022	1
34DAP/26DAP	1.00908	1
51DAP/34DAP	1.08889	0.654
52DAP/51DAP	0.94165	1
53DAP/52DAP	0.79604	0.245
55DAP/53DAP	1.12061	0.719
57DAP/55DAP	1.06707	0.841
62DAP/57DAP	1.02448	1
68DAP/62DAP	0.97161	0.769
68DAP/14DAP	0.93958	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.00953	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.04524
Mature Green Tomato/Ripe Tomato	0.0948	0.018
Immature Eggplant/Mature Eggplant	1.1764	0.334
Ripe Pepper/Ripe Tomato	1.65983	1
Mature Eggplant/Ripe Tomato	2.47362	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9175	0.69
1-1-2/M82	0.90895	1
12-2/M82	1.0285	1
12-4/M82	1.1269	0.611
1-3/M82	0.81951	0.378
2-1-1/M82	1.01264
2-1/M82	0.93963
2-6/M82	1.15592	0.594
3-2/M82	0.74708
4-1-1/M82	0.92468	1
4-1/M82	1.20573
4-3-2/M82	0.96467
4-3/M82	0.8147	0.72
5-3/M82	0.91896	0.49
6-2/M82	0.81927	1
6-3/M82	1.01734	1
7-1/M82	1.03809	1
7-2/M82	1.02415
9-3-2/M82	1.71036	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.03875	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.80453	0.294
IL12-4/WTpooled	0.95719	0.71
IL1-4/WTpooled	0.93768
WT/WTpooled	0.96796	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	0.73327	0.209

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9788	1
DC3000/delta hrp 6h	0.64211	0.81
DC3000/delta hrp 12h	1.07407	1
DC3000/delta hrp 24h	1.09834	0.254

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.08412	0.208
DC3000 delta B/DC3000 delta AB	1.02526	0.609

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.93906	1
Exp 36h	1.22078	1
Exp 60h	1.02649	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00501	1
Var 0h	1.01254	1
Var 12h I row2-row1	1.06956	0.379
Var 12h NI row2-row1	1.16212	0.649
Var 36h I row2-row1	0.93136	0.805
Var 36h NI row2-row1	0.87169	0.522
Var 60h I row2-row1	1.33073	0.562
Var 60h NI row2-row1	1.04333	1
Time course 0hI-0hNI	1.06709	0.833
Time course 12hI-12hNI	1.02954	0.82
Time course 36hI-36hNI	0.99422	0.718
Time course 60hI-60hNI	1.02202	0.495

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)	1.02326	0.699
transgenic ySAMdc/azygous control (breaker)	1.10986	0.248
transgenic ySAMdc/azygous control (red)	1.05413	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97142	0.313

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.12	1

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)	1.29837	0.126
Manapal/WT (red)	1.16601	0.413