Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.2.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09759	0.827
27DAP/17DAP	1.09643	0.868
39DAP/27DAP	0.70544	0.397
41DAP/39DAP	1.4767	0.363
42DAP/41DAP	1.13745	1
43DAP/42DAP	1.08875	1
47DAP/43DAP	0.90418	0.701
52DAP/47DAP	0.87661	0.641
57DAP/52DAP	1.13544	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07499	0.207
17DAP/reference	1.03611	0.342
27DAP/reference	1.05625	0.394
39DAP/reference	1.01709	0.524
41DAP/reference	1.06151	0.552
42DAP/reference	0.91278	0.022
43DAP/reference	0.95521	0.48
47DAP/reference	0.97737	0.392
52DAP/reference	0.71727	0.115
57DAP/reference	0.93285	0.014

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96344	0.644
27DAP/17DAP	0.99169	0.943
39DAP/27DAP	1.16492	0.353
41DAP/39DAP	1.05655	0.88
42DAP/41DAP	1.01903	1
43DAP/42DAP	1.02986	0.554
47DAP/43DAP	1.01207	0.914
52DAP/47DAP	0.97244	0.848
57DAP/52DAP	0.92945	0.532
57DAP/7DAP	0.94578	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.33825	0.189
17DAP/reference	1.57546	0.007
27DAP/reference	1.39934	0.035
39DAP/reference	1.54585	0.023
41DAP/reference	1.31886	0.016
42DAP/reference	1.31923	0.046
43DAP/reference	1.39285	0.013
47DAP/reference	1.32932	0.091
52DAP/reference	1.31296	0.066
57DAP/reference	1.54082	0.014

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04425	0.43
17DAP/reference	1.1128	0.043
27DAP/reference	0.92737	0.282
39DAP/reference	0.92461	0.243
41DAP/reference	0.94659	0.262
42DAP/reference	0.93802	0.189
43DAP/reference	0.89466	0.292
47DAP/reference	0.99795	0.749
52DAP/reference	0.99428	0.666
57DAP/reference	1.03482	0.724

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.41217	0.024
17DAP/reference	1.0017	1
27DAP/reference	1.42298	0.04
39DAP/reference	1.6167	0.025
41DAP/reference	1.42355	0.043
42DAP/reference	1.40582	0.117
43DAP/reference	1.31452	0.343
47DAP/reference	0.95128	0.24
52DAP/reference	1.41518	0.09
57DAP/reference	0.76823	0.035

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0063	0.966
26DAP/20DAP	0.86301	0.512
34DAP/26DAP	1.04059	1
51DAP/34DAP	0.94854	0.618
52DAP/51DAP	0.93943	1
53DAP/52DAP	1.06279	0.738
55DAP/53DAP	1.03523	0.848
57DAP/55DAP	1.05078	0.881
62DAP/57DAP	1.44818
68DAP/62DAP	1.08545	1
68DAP/14DAP	1.23123	0.487

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.92001	0.079

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.63034	0.147
Mature Green Tomato/Ripe Tomato	1.27986	0.134
Immature Eggplant/Mature Eggplant	0.90445	0.407
Ripe Pepper/Ripe Tomato	2.46976	0.256
Mature Eggplant/Ripe Tomato	1.98825	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.16343	0.591
1-1-2/M82	0.93354	1
12-2/M82	1.20722	1
12-4/M82	0.94123	1
1-3/M82	0.97143	1
2-1-1/M82	1.07432	0.764
2-1/M82	1.15968	1
2-6/M82	1.01559	0.695
3-2/M82	0.88681	0.752
4-1-1/M82	0.94767	1
4-1/M82	1.1693
4-3-2/M82	0.95659	1
4-3/M82	1.01813	1
5-3/M82	0.91498	0.642
6-2/M82	0.95637	0.481
6-3/M82	1.09237	1
7-1/M82	1.07288	0.539
7-2/M82	1.07375	1
9-3-2/M82	0.82638	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.11786	0.659
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.56279	0.294
IL12-4/WTpooled	0.95814	1
IL1-4/WTpooled	0.89631
WT/WTpooled	1.01724	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	0.87338	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93653	1
DC3000/delta hrp 6h	0.90617	0.95
DC3000/delta hrp 12h	1.06755	1
DC3000/delta hrp 24h	0.91662	0.371

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.94166	0.841
DC3000 delta B/DC3000 delta AB	0.97298	0.766

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92263	0.328
Exp 36h	0.9481	0.879
Exp 60h	0.8398	0.32

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99733	1
Var 0h	1.10621	0.374
Var 12h I row2-row1	0.993	1
Var 12h NI row2-row1	1.00498	1
Var 36h I row2-row1	0.87379	0.575
Var 36h NI row2-row1	1.1471	1
Var 60h I row2-row1	1.67312	1
Var 60h NI row2-row1	1.22471	0.904
Time course 0hI-0hNI	1.01309	1
Time course 12hI-12hNI	0.96737	0.586
Time course 36hI-36hNI	0.884	0.057
Time course 60hI-60hNI	0.76219	0.015

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)	0.96198	0.428
transgenic ySAMdc/azygous control (breaker)	1.42878	0.165
transgenic ySAMdc/azygous control (red)	1.16067	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00104	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.28126	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.58151	0.086
Manapal/WT (break)	2.22585	0.14
Manapal/WT (red)	2.69638	0.126