Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.6.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02972	0.788
27DAP/17DAP	1.27503	0.793
39DAP/27DAP	1.25765	0.61
41DAP/39DAP	1.75145	0.179
42DAP/41DAP	8.64312	0.016
43DAP/42DAP	2.83959	0.375
47DAP/43DAP	1.4812	0.415
52DAP/47DAP	0.36308	0.033
57DAP/52DAP	1.95908	0.567

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94483	0.352
17DAP/reference	1.05705	0.427
27DAP/reference	0.99625	0.847
39DAP/reference	0.96351	0.575
41DAP/reference	0.96627	0.542
42DAP/reference	0.98281	0.326
43DAP/reference	0.93344	0.331
47DAP/reference	1.00866	0.72
52DAP/reference	0.73012	0.018
57DAP/reference	0.96688	0.377

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84623	0.185
27DAP/17DAP	0.95138	0.821
39DAP/27DAP	1.11676	0.512
41DAP/39DAP	1.09463	0.921
42DAP/41DAP	1.06886	0.927
43DAP/42DAP	1.10578	0.297
47DAP/43DAP	0.96819	0.846
52DAP/47DAP	1.05403	0.907
57DAP/52DAP	0.9651	0.68
57DAP/7DAP	0.98235	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09907	0.368
17DAP/reference	0.95341	0.295
27DAP/reference	0.85777	0.088
39DAP/reference	0.98573	0.552
41DAP/reference	1.0006	0.709
42DAP/reference	0.9074	0.178
43DAP/reference	0.9433	0.305
47DAP/reference	1.13802	0.324
52DAP/reference	1.03917	0.941
57DAP/reference	1.10802	0.125

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00152	0.951
17DAP/reference	1.02075	0.859
27DAP/reference	0.96375	0.423
39DAP/reference	0.89533	0.126
41DAP/reference	0.96831	0.393
42DAP/reference	1.04857	0.634
43DAP/reference	1.14337	0.313
47DAP/reference	1.10557	0.076
52DAP/reference	0.8165	0.051
57DAP/reference	1.09483	0.334

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1679	0.422
17DAP/reference	1.163	0.333
27DAP/reference	0.76686	0.027
39DAP/reference	0.96099	0.464
41DAP/reference	0.86751	0.148
42DAP/reference	0.87631	0.087
43DAP/reference	0.64691	0.023
47DAP/reference	0.81609	0.057
52DAP/reference	0.879	0.319
57DAP/reference	0.95559	0.359

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98852	1
26DAP/20DAP	0.72	0.317
34DAP/26DAP	1.25344	0.819
51DAP/34DAP	1.08591	0.55
52DAP/51DAP	1.08204	0.579
53DAP/52DAP	1.13166	0.565
55DAP/53DAP	1.14464	0.634
57DAP/55DAP	1.21709	0.543
62DAP/57DAP	0.66456	0.088
68DAP/62DAP	0.69079	0.227
68DAP/14DAP	0.52348	0.086

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.79217	0.033

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.59798	0.13
Mature Green Tomato/Ripe Tomato	0.03625	0.017
Immature Eggplant/Mature Eggplant	0.87667	0.223
Ripe Pepper/Ripe Tomato	4.05801	0.233
Mature Eggplant/Ripe Tomato	3.60975

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	3.03678
12-2/M82	N/A	N/A
12-4/M82	2.93487
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	0.9775
4-1-1/M82	N/A	N/A
4-1/M82	4.01958
4-3-2/M82	2.13763	0.508
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.20501
7-2/M82	N/A	N/A
9-3-2/M82	2.0667	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.70375
IL2-6/WTpooled	1.01804	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.04353	1
IL12-4/WTpooled	1.06457	0.646
IL1-4/WTpooled	0.85857	0.699
WT/WTpooled	1.02056	0.87

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	1.61905	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	1.01686	1
DC3000/delta hrp 12h	1.24084	1
DC3000/delta hrp 24h	0.7352	0.503

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	1.06133	0.571

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.56034	1
Exp 36h	0.96017	0.879
Exp 60h	1.30823	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96647	1
Var 0h	0.55739	0.936
Var 12h I row2-row1	1.39795	0.613
Var 12h NI row2-row1	0.73032	0.627
Var 36h I row2-row1	1.04901	1
Var 36h NI row2-row1	1.21396	1
Var 60h I row2-row1	1.01229	1
Var 60h NI row2-row1	1.20743	1
Time course 0hI-0hNI	1.68891	0.833
Time course 12hI-12hNI	1.01854	0.9
Time course 36hI-36hNI	0.82929	0.139
Time course 60hI-60hNI	0.88048	0.081

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)	0.93223	0.529
transgenic ySAMdc/azygous control (breaker)	1.13032	1
transgenic ySAMdc/azygous control (red)	0.89835	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0454	0.525

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.011	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.0063	1
Manapal/WT (break)	0.87138	0.333
Manapal/WT (red)	1.4052	1