Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.6.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99145	0.876
27DAP/17DAP	1.34802	0.656
39DAP/27DAP	0.86774	0.512
41DAP/39DAP	1.14331	0.464
42DAP/41DAP	1.11087	0.85
43DAP/42DAP	0.83242	0.751
47DAP/43DAP	1.27475	0.21
52DAP/47DAP	1.23033	0.613
57DAP/52DAP	1.00053	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00514	1
17DAP/reference	1.03526	0.399
27DAP/reference	1.04726	0.33
39DAP/reference	1.04878	0.27
41DAP/reference	1.04839	0.624
42DAP/reference	0.96773	0.225
43DAP/reference	1.02843	0.36
47DAP/reference	0.97015	0.258
52DAP/reference	0.91626	0.244
57DAP/reference	0.8778	0.01

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99329	0.801
27DAP/17DAP	1.00063	0.969
39DAP/27DAP	1.09505	0.553
41DAP/39DAP	0.91774	0.567
42DAP/41DAP	1.07562	0.601
43DAP/42DAP	1.02824	0.664
47DAP/43DAP	0.98453	0.923
52DAP/47DAP	1.07794	0.734
57DAP/52DAP	1.13135	0.421
57DAP/7DAP	1.06778	0.23

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02876	0.98
17DAP/reference	1.14372	0.102
27DAP/reference	1.03713	0.974
39DAP/reference	1.16189	0.46
41DAP/reference	1.02489	1
42DAP/reference	0.97532	0.554
43DAP/reference	1.03085	0.727
47DAP/reference	0.78302	0.101
52DAP/reference	1.28552	0.071
57DAP/reference	1.20069	0.137

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07632	0.67
17DAP/reference	1.09968	0.156
27DAP/reference	0.9074	0.22
39DAP/reference	0.89613	0.152
41DAP/reference	0.98007	0.531
42DAP/reference	1.02775	0.723
43DAP/reference	1.01755	1
47DAP/reference	1.00217	0.77
52DAP/reference	0.96126	0.259
57DAP/reference	1.16978	0.334

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00448	0.804
17DAP/reference	1.012	1
27DAP/reference	0.88084	0.257
39DAP/reference	1.96478	0.466
41DAP/reference	0.82497	0.119
42DAP/reference	0.88543	0.361
43DAP/reference	0.93533	0.468
47DAP/reference	0.97827	0.558
52DAP/reference	1.13037	0.575
57DAP/reference	0.49063	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.1387	0.817
26DAP/20DAP	0.90029	0.317
34DAP/26DAP	0.95673	0.945
51DAP/34DAP	0.74889	0.073
52DAP/51DAP	1.11923	0.606
53DAP/52DAP	1.12066	0.753
55DAP/53DAP	1.04962	0.782
57DAP/55DAP	0.91673	0.703
62DAP/57DAP	1.10827
68DAP/62DAP	0.95138	0.787
68DAP/14DAP	0.9257	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.22953	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.68228	0.045
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.65904
Mature Eggplant/Ripe Tomato	0.28566	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.76141
12-2/M82	N/A	N/A
12-4/M82	1.28948
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	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.20652
4-3/M82	N/A	N/A
5-3/M82	0.86533
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	0.91142

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.54174	0.247
IL2-6/WTpooled	0.67476	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.27705	1
IL12-4/WTpooled	1.19	0.646
IL1-4/WTpooled	0.86669	0.562
WT/WTpooled	0.98038	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	0.99069	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06605	0.921
DC3000/delta hrp 6h	0.29034
DC3000/delta hrp 12h	1.14653	1
DC3000/delta hrp 24h	1.3078	0.264

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.24275	0.333
DC3000 delta B/DC3000 delta AB	1.14331	0.226

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.79516	1
Exp 36h	1.2035	0.693
Exp 60h	0.94561	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99151	1
Var 0h	1.0254	1
Var 12h I row2-row1	1.05662	0.613
Var 12h NI row2-row1	0.82255	0.627
Var 36h I row2-row1	0.83912	0.374
Var 36h NI row2-row1	1.12592	1
Var 60h I row2-row1	1.0633	0.562
Var 60h NI row2-row1	1.23387	0.904
Time course 0hI-0hNI	1.08731	0.377
Time course 12hI-12hNI	0.93898	0.484
Time course 36hI-36hNI	0.79481	0.023
Time course 60hI-60hNI	1.58539	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)	1.10507	0.261
transgenic ySAMdc/azygous control (breaker)	1.50101	0.162
transgenic ySAMdc/azygous control (red)	1.15793	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02235	0.155

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.05798	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.04934	1
Manapal/WT (break)	0.77794	1
Manapal/WT (red)	0.9586	0.728