Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.19.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.63239	0.06
27DAP/17DAP	0.98391	0.934
39DAP/27DAP	0.9344	0.641
41DAP/39DAP	1.04615	0.944
42DAP/41DAP	1.12088	0.773
43DAP/42DAP	0.89165	0.788
47DAP/43DAP	0.98535	0.89
52DAP/47DAP	0.91923	0.754
57DAP/52DAP	1.07734	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90983	0.402
17DAP/reference	1.03379	0.813
27DAP/reference	1.19947	0.478
39DAP/reference	1.02306	0.855
41DAP/reference	1.40496	0.122
42DAP/reference	1.00242	0.731
43DAP/reference	0.96345	0.745
47DAP/reference	1.11287	0.794
52DAP/reference	1.23722	0.011
57DAP/reference	1.45863	0.984

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81181	0.178
27DAP/17DAP	1.04883	0.872
39DAP/27DAP	1.12236	0.285
41DAP/39DAP	1.03785	0.807
42DAP/41DAP	1.06821	0.687
43DAP/42DAP	1.03142	0.446
47DAP/43DAP	1.02209	0.897
52DAP/47DAP	1.02524	0.927
57DAP/52DAP	1.10715	0.479
57DAP/7DAP	0.80834	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94969	0.402
17DAP/reference	1.01884	1
27DAP/reference	0.94823	0.325
39DAP/reference	1.16161	0.391
41DAP/reference	1.015	0.709
42DAP/reference	1.025	1
43DAP/reference	1.09405	0.707
47DAP/reference	1.25418	0.033
52DAP/reference	1.10819	0.308
57DAP/reference	1.15938	0.158

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02897	0.965
17DAP/reference	1.11062	0.406
27DAP/reference	1.76152	0.126
39DAP/reference	1.37123	0.035
41DAP/reference	1.31044	0.046
42DAP/reference	1.11144	0.359
43DAP/reference	1.04246	0.814
47DAP/reference	1.15971	0.065
52DAP/reference	1.28492	0.053
57DAP/reference	1.13656	0.705

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07875	0.397
17DAP/reference	1.0797	0.699
27DAP/reference	0.98357	0.594
39DAP/reference	1.07585	0.33
41DAP/reference	1.02459	0.818
42DAP/reference	0.95528	0.552
43DAP/reference	1.1833	0.439
47DAP/reference	1.3552	0.228
52DAP/reference	1.08253	0.735
57DAP/reference	1.47301	0.009

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.27567	1
26DAP/20DAP	1.47872	0.33
34DAP/26DAP	0.92182	0.763
51DAP/34DAP	0.83864	0.15
52DAP/51DAP	1.16109	0.396
53DAP/52DAP	0.93996	0.535
55DAP/53DAP	1.07273	0.534
57DAP/55DAP	0.88216	0.423
62DAP/57DAP	1.22401	0.723
68DAP/62DAP	1.19376	0.939
68DAP/14DAP	1.17418	0.785

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.72312	0.023

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.69652
Mature Green Tomato/Ripe Tomato	1.41243	0.064
Immature Eggplant/Mature Eggplant	1.12557	0.363
Ripe Pepper/Ripe Tomato	0.31878	0.224
Mature Eggplant/Ripe Tomato	0.48652	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.92736	0.944
1-1-2/M82	1.03626	1
12-2/M82	0.94308
12-4/M82	0.77667	0.282
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	0.99204	1
3-2/M82	0.87155
4-1-1/M82	1.03345
4-1/M82	N/A	N/A
4-3-2/M82	0.86477	0.487
4-3/M82	1.34308	0.268
5-3/M82	1.1241	1
6-2/M82	N/A	N/A
6-3/M82	1.04687	1
7-1/M82	N/A	N/A
7-2/M82	1.44188	0.385
9-3-2/M82	1.03458	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.12318
IL2-6/WTpooled	0.82116	0.383
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.93258	1
IL12-4/WTpooled	0.8854	1
IL1-4/WTpooled	0.94985	1
WT/WTpooled	0.98949	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	1.14259	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02699	0.921
DC3000/delta hrp 6h	1.13234	1
DC3000/delta hrp 12h	1.5573	1
DC3000/delta hrp 24h	1.06982	0.567

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.16434	0.16
DC3000 delta B/DC3000 delta AB	1.30345	0.139

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.22469	0.254
Exp 36h	0.73321	0.406
Exp 60h	1.11845	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01312	1
Var 0h	0.93079	0.933
Var 12h I row2-row1	1.46198	0.506
Var 12h NI row2-row1	1.01444	1
Var 36h I row2-row1	1.04212	0.908
Var 36h NI row2-row1	1.06069	1
Var 60h I row2-row1	0.87156	0.439
Var 60h NI row2-row1	0.9946	1
Time course 0hI-0hNI	0.96493	0.821
Time course 12hI-12hNI	1.0637	0.287
Time course 36hI-36hNI	1.26717	0.015
Time course 60hI-60hNI	1.77472	0.008

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)	0.85801	0.3
transgenic ySAMdc/azygous control (breaker)	0.93975	0.49
transgenic ySAMdc/azygous control (red)	1.01194	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04119	0.656

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.87082	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.55042	0.09
Manapal/WT (break)	1.72072	0.14
Manapal/WT (red)	1.52812	0.137