Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.15.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09767	0.67
27DAP/17DAP	1.05877	0.926
39DAP/27DAP	0.94153	0.652
41DAP/39DAP	1.17451	0.735
42DAP/41DAP	1.19747	0.843
43DAP/42DAP	1.05279	1
47DAP/43DAP	1.14441	0.856
52DAP/47DAP	0.84373	0.593
57DAP/52DAP	0.99944	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0298	0.735
17DAP/reference	1.06061	0.077
27DAP/reference	1.04998	0.271
39DAP/reference	1.04999	0.104
41DAP/reference	1.03166	0.552
42DAP/reference	0.99458	0.501
43DAP/reference	0.92585	0.429
47DAP/reference	0.99536	0.602
52DAP/reference	0.97318	0.504
57DAP/reference	0.96813	0.479

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95391	0.496
27DAP/17DAP	0.97814	0.821
39DAP/27DAP	0.9724	0.682
41DAP/39DAP	1.01452	0.887
42DAP/41DAP	0.95436	0.572
43DAP/42DAP	1.05054	0.176
47DAP/43DAP	0.99422	0.985
52DAP/47DAP	0.97791	0.884
57DAP/52DAP	0.99216	0.848
57DAP/7DAP	1.01896	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06517	0.793
17DAP/reference	0.90238	0.124
27DAP/reference	0.94306	0.231
39DAP/reference	1.05892	0.511
41DAP/reference	0.96827	0.449
42DAP/reference	1.05808	1
43DAP/reference	0.91668	0.126
47DAP/reference	0.99033	1
52DAP/reference	1.05136	1
57DAP/reference	1.13459	0.438

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98563	0.77
17DAP/reference	0.97897	0.548
27DAP/reference	0.8887	0.16
39DAP/reference	0.8985	0.178
41DAP/reference	0.87485	0.096
42DAP/reference	0.94322	0.321
43DAP/reference	0.86586	0.051
47DAP/reference	1.09769	0.232
52DAP/reference	0.94248	0.131
57DAP/reference	0.87433	0.035

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08374	0.758
17DAP/reference	1.00129	0.855
27DAP/reference	1.01994	1
39DAP/reference	1.09246	0.711
41DAP/reference	1.1563	0.605
42DAP/reference	1.26544	0.373
43DAP/reference	1.32937	0.28
47DAP/reference	0.90564	0.231
52DAP/reference	1.11932	0.664
57DAP/reference	0.74327	0.028

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04	0.966
26DAP/20DAP	1.01237	1
34DAP/26DAP	0.9772	0.936
51DAP/34DAP	1.03085	0.829
52DAP/51DAP	0.96355	1
53DAP/52DAP	1.07133	0.458
55DAP/53DAP	0.93947	0.203
57DAP/55DAP	0.97873	0.888
62DAP/57DAP	0.95752	0.681
68DAP/62DAP	1.00141	0.939
68DAP/14DAP	1.06128	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.03857	0.74

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.53487	0.089
Mature Green Tomato/Ripe Tomato	0.96213	0.66
Immature Eggplant/Mature Eggplant	0.95171	0.72
Ripe Pepper/Ripe Tomato	1.5624	0.256
Mature Eggplant/Ripe Tomato	1.93034	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96554	0.907
1-1-2/M82	0.95454	0.958
12-2/M82	0.97239	0.955
12-4/M82	0.96822	1
1-3/M82	0.93521	0.501
2-1-1/M82	1.0897	0.764
2-1/M82	1.33691	1
2-6/M82	1.02462	1
3-2/M82	1.02281	1
4-1-1/M82	1.04381	1
4-1/M82	1.02508	1
4-3-2/M82	0.98768	1
4-3/M82	1.03693	1
5-3/M82	0.98506	1
6-2/M82	1.01349	1
6-3/M82	0.98866	1
7-1/M82	1.02381	0.925
7-2/M82	0.95333	0.881
9-3-2/M82	0.88412	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.83087
IL2-6/WTpooled	1.50277	0.531
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.92984	1
IL12-4/WTpooled	1.37997	0.424
IL1-4/WTpooled	2.10219	1
WT/WTpooled	1.02025	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	1.26736

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91177	1
DC3000/delta hrp 6h	1.19092	1
DC3000/delta hrp 12h	0.98126	1
DC3000/delta hrp 24h	1.04375	0.743

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.22453	0.042
DC3000 delta B/DC3000 delta AB	1.18031	0.265

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.82793	1
Exp 36h	0.88834	0.661
Exp 60h	0.916	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01032	1
Var 0h	0.44574	0.933
Var 12h I row2-row1	1.06172	0.406
Var 12h NI row2-row1	0.94803	0.82
Var 36h I row2-row1	1.10728	1
Var 36h NI row2-row1	0.99128	0.852
Var 60h I row2-row1	1.10271	0.562
Var 60h NI row2-row1	1.26368	0.904
Time course 0hI-0hNI	1.01661	1
Time course 12hI-12hNI	1.04912	0.724
Time course 36hI-36hNI	0.99099	0.68
Time course 60hI-60hNI	1.2836	0.011

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)	1.25702	0.318
transgenic ySAMdc/azygous control (breaker)	1.57213	0.178
transgenic ySAMdc/azygous control (red)	1.02531	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96166	0.07

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.21966	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.60896	0.14
Manapal/WT (break)	2.78491	1
Manapal/WT (red)	0.71124	0.181