Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.15.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78393	0.159
27DAP/17DAP	1.19608	0.799
39DAP/27DAP	1.16892	0.91
41DAP/39DAP	1.14924	0.814
42DAP/41DAP	0.72914	0.397
43DAP/42DAP	1.7065	0.288
47DAP/43DAP	0.73913	0.245
52DAP/47DAP	1.32015	0.468
57DAP/52DAP	0.8699	0.852

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91539	0.136
17DAP/reference	0.89524	0.053
27DAP/reference	1.04868	0.759
39DAP/reference	1.0001	1
41DAP/reference	0.91974	0.341
42DAP/reference	1.06825	0.032
43DAP/reference	0.97745	0.653
47DAP/reference	1.02941	0.752
52DAP/reference	1.24274	0.076
57DAP/reference	1.28969	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.67169	0.048
27DAP/17DAP	1.22961	0.218
39DAP/27DAP	1.18966	0.173
41DAP/39DAP	0.75414	0.013
42DAP/41DAP	0.98806	0.83
43DAP/42DAP	1.04692	0.513
47DAP/43DAP	1.04661	0.678
52DAP/47DAP	1.01064	0.986
57DAP/52DAP	1.13518	0.352
57DAP/7DAP	0.75497	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94356	0.326
17DAP/reference	0.81307	0.019
27DAP/reference	0.8436	0.014
39DAP/reference	0.82871	0.015
41DAP/reference	0.85167	0.049
42DAP/reference	0.80633	0.017
43DAP/reference	0.75622	0.011
47DAP/reference	0.91409	0.293
52DAP/reference	0.7339	0.014
57DAP/reference	0.77037	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08136	0.491
17DAP/reference	0.82221	0.047
27DAP/reference	0.91425	0.249
39DAP/reference	0.86118	0.067
41DAP/reference	0.88686	0.083
42DAP/reference	1.02621	0.987
43DAP/reference	1.05919	0.817
47DAP/reference	1.02559	1
52DAP/reference	0.91174	0.034
57DAP/reference	0.88872	0.046

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8539	0.057
17DAP/reference	0.92621	0.462
27DAP/reference	0.74726	0.038
39DAP/reference	0.73625	0.02
41DAP/reference	0.84674	0.132
42DAP/reference	0.89648	0.287
43DAP/reference	0.88072	0.158
47DAP/reference	1.05923	0.901
52DAP/reference	0.76526	0.145
57DAP/reference	1.1055	0.604

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.82371	0.841
26DAP/20DAP	1.32651	0.15
34DAP/26DAP	0.95566	0.944
51DAP/34DAP	0.99932	0.96
52DAP/51DAP	1.20611	0.041
53DAP/52DAP	0.73155	0.049
55DAP/53DAP	1.05166	0.834
57DAP/55DAP	0.97829	0.863
62DAP/57DAP	1.46157	0.011
68DAP/62DAP	0.73635	0.378
68DAP/14DAP	1.35523	0.594

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97228	0.607

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.08236	0.089
Mature Green Tomato/Ripe Tomato	0.69987	0.051
Immature Eggplant/Mature Eggplant	0.54556	0.063
Ripe Pepper/Ripe Tomato	0.56757	0.224
Mature Eggplant/Ripe Tomato	0.67268	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.13677	0.473
1-1-2/M82	0.98179	1
12-2/M82	1.08744	1
12-4/M82	1.01706	1
1-3/M82	1.13914	0.26
2-1-1/M82	1.0446	1
2-1/M82	1.05871	1
2-6/M82	1.0853	1
3-2/M82	0.98573
4-1-1/M82	1.07045	1
4-1/M82	1.21598	0.319
4-3-2/M82	0.94025	1
4-3/M82	1.18828	1
5-3/M82	1.0042	1
6-2/M82	0.85961	0.473
6-3/M82	1.03606	1
7-1/M82	0.84459
7-2/M82	1.05524	0.385
9-3-2/M82	1.04171	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.13953
IL2-6/WTpooled	1.09049	0.531
IL7-5/WTpooled	0.68872
IL7-3/WTpooled	1.0194	0.362
IL12-4/WTpooled	1.17212	0.646
IL1-4/WTpooled	0.91722	0.834
WT/WTpooled	1.00416	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	1.00806	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97011	1
DC3000/delta hrp 6h	0.99912	0.95
DC3000/delta hrp 12h	1.13926	1
DC3000/delta hrp 24h	0.93888	0.523

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.58177	0.032
DC3000 delta B/DC3000 delta AB	1.13812	0.406

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.89095	1
Exp 36h	0.87802	0.749
Exp 60h	1.16582	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98249	1
Var 0h	0.98154	1
Var 12h I row2-row1	1.07437	0.242
Var 12h NI row2-row1	0.93279	0.713
Var 36h I row2-row1	0.73793	0.805
Var 36h NI row2-row1	1.01945	1
Var 60h I row2-row1	1.74089	0.562
Var 60h NI row2-row1	1.11851	0.904
Time course 0hI-0hNI	1.0161	0.867
Time course 12hI-12hNI	0.99945	1
Time course 36hI-36hNI	1.13663	0.05
Time course 60hI-60hNI	1.14707	0.096

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)	0.9759	0.529
transgenic ySAMdc/azygous control (breaker)	2.18491	0.161
transgenic ySAMdc/azygous control (red)	1.04947	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01775	0.317

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.48441	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.40536	0.14
Manapal/WT (break)	0.78344	0.333
Manapal/WT (red)	0.8473	0.188