Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.8.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1394	0.975
27DAP/17DAP	0.98022	0.992
39DAP/27DAP	0.79043	0.458
41DAP/39DAP	1.55414	0.549
42DAP/41DAP	1.38027	0.654
43DAP/42DAP	0.85844	0.799
47DAP/43DAP	0.91311	0.699
52DAP/47DAP	2.53576	0.195
57DAP/52DAP	0.92651	0.923

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91998	0.159
17DAP/reference	0.97237	0.536
27DAP/reference	1.05034	0.66
39DAP/reference	0.96994	0.611
41DAP/reference	0.97209	0.667
42DAP/reference	0.94853	0.182
43DAP/reference	1.10678	0.217
47DAP/reference	0.95344	0.224
52DAP/reference	0.89974	0.183
57DAP/reference	0.9197	0.235

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98326	0.763
27DAP/17DAP	1.01278	1
39DAP/27DAP	1.10631	0.422
41DAP/39DAP	0.97259	0.973
42DAP/41DAP	1.17342	0.084
43DAP/42DAP	1.26257	0.034
47DAP/43DAP	0.97804	0.902
52DAP/47DAP	0.87756	0.334
57DAP/52DAP	0.8496	0.189
57DAP/7DAP	1.43708	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8907	0.246
17DAP/reference	0.57144	0.253
27DAP/reference	0.87406	0.2
39DAP/reference	1.14647	0.166
41DAP/reference	1.08154	0.507
42DAP/reference	0.98272	0.554
43DAP/reference	0.98781	0.608
47DAP/reference	0.99728	1
52DAP/reference	1.1998	0.092
57DAP/reference	1.19958	0.438

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99083	0.831
17DAP/reference	1.08132	0.285
27DAP/reference	1.06786	0.543
39DAP/reference	0.8952	0.195
41DAP/reference	0.95035	0.262
42DAP/reference	0.89639	0.121
43DAP/reference	1.04402	0.801
47DAP/reference	0.8897	0.066
52DAP/reference	1.00601	1
57DAP/reference	1.04954	0.786

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86239	0.362
17DAP/reference	1.15715	0.371
27DAP/reference	0.923	0.442
39DAP/reference	0.98254	0.755
41DAP/reference	1.10739	0.471
42DAP/reference	1.01944	0.818
43DAP/reference	0.85712	0.137
47DAP/reference	1.03162	1
52DAP/reference	0.86424	0.238
57DAP/reference	1.03317	0.878

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97689	1
26DAP/20DAP	0.76143	0.228
34DAP/26DAP	0.96504	0.944
51DAP/34DAP	1.24133	0.759
52DAP/51DAP	1.06769	0.522
53DAP/52DAP	0.89766	0.365
55DAP/53DAP	1.30022	0.444
57DAP/55DAP	1.08783	0.906
62DAP/57DAP	1.10077	0.902
68DAP/62DAP	0.98649	0.863
68DAP/14DAP	0.74669	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.16038	0.264

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.88077	0.411
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.3187	0.224
Mature Eggplant/Ripe Tomato	0.23456	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.64764	0.616
1-1-2/M82	0.94381	1
12-2/M82	1.62926	1
12-4/M82	0.71338	0.358
1-3/M82	0.83478	0.378
2-1-1/M82	0.50202	0.465
2-1/M82	1.01855	1
2-6/M82	0.64876	1
3-2/M82	0.82541	0.752
4-1-1/M82	0.5525	1
4-1/M82	0.75653	1
4-3-2/M82	0.48312	0.487
4-3/M82	0.32087	0.46
5-3/M82	0.91533	0.642
6-2/M82	0.39129	0.497
6-3/M82	1.25047	1
7-1/M82	0.71168	0.466
7-2/M82	0.75873	0.578
9-3-2/M82	0.53627	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.0202
IL2-6/WTpooled	1.07963	0.659
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.0043	1
IL12-4/WTpooled	0.84554	0.71
IL1-4/WTpooled	0.94816	0.562
WT/WTpooled	0.86267	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	1.07292	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99448	1
DC3000/delta hrp 6h	0.9019	0.95
DC3000/delta hrp 12h	1.21297	1
DC3000/delta hrp 24h	1.02321	0.673

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	0.90507	0.511

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.9564	1
Exp 36h	1.28166	1
Exp 60h	1.00519	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96049	1
Var 0h	1.02094	1
Var 12h I row2-row1	1.10501	0.222
Var 12h NI row2-row1	0.88095	0.427
Var 36h I row2-row1	0.88829	0.374
Var 36h NI row2-row1	1.29103	1
Var 60h I row2-row1	1.278	0.562
Var 60h NI row2-row1	1.12966	0.904
Time course 0hI-0hNI	1.03546	0.867
Time course 12hI-12hNI	1.04133	0.672
Time course 36hI-36hNI	0.90182	0.082
Time course 60hI-60hNI	1.06957	0.187

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)	1.46437	0.246
transgenic ySAMdc/azygous control (breaker)	1.10802	1
transgenic ySAMdc/azygous control (red)	0.74164	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03347	0.234

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.86964	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.02947	1
Manapal/WT (break)	1.22078	1
Manapal/WT (red)	0.85714	0.199