Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.10.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91145	0.511
27DAP/17DAP	0.9467	0.894
39DAP/27DAP	1.22392	0.583
41DAP/39DAP	1.04812	0.914
42DAP/41DAP	1.13136	0.752
43DAP/42DAP	0.87731	0.576
47DAP/43DAP	0.74045	0.263
52DAP/47DAP	1.84076	0.147
57DAP/52DAP	0.88205	0.678

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01339	1
17DAP/reference	0.90106	0.022
27DAP/reference	0.96898	0.428
39DAP/reference	0.94973	0.424
41DAP/reference	1.03087	0.624
42DAP/reference	1.04594	0.103
43DAP/reference	0.97121	0.464
47DAP/reference	0.92387	0.025
52DAP/reference	0.9773	0.461
57DAP/reference	0.88121	0.015

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.49058	0.049
27DAP/17DAP	0.77317	0.363
39DAP/27DAP	0.7688	0.048
41DAP/39DAP	1.12881	0.65
42DAP/41DAP	1.04259	0.904
43DAP/42DAP	1.0218	0.83
47DAP/43DAP	0.98	0.911
52DAP/47DAP	1.12231	0.586
57DAP/52DAP	0.95826	0.691
57DAP/7DAP	0.79081	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93089	0.27
17DAP/reference	0.88985	0.011
27DAP/reference	0.85537	0.01
39DAP/reference	0.94893	0.025
41DAP/reference	0.88704	0.026
42DAP/reference	0.98407	0.531
43DAP/reference	0.9365	0.202
47DAP/reference	0.84518	0.101
52DAP/reference	0.92179	0.137
57DAP/reference	0.90131	0.045

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10283	0.17
17DAP/reference	1.19433	0.015
27DAP/reference	1.10311	0.316
39DAP/reference	0.99568	0.642
41DAP/reference	1.06948	0.614
42DAP/reference	1.03213	0.73
43DAP/reference	1.17637	0.222
47DAP/reference	0.97766	0.328
52DAP/reference	0.986	0.537
57DAP/reference	1.18236	0.214

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87381	0.214
17DAP/reference	0.97666	0.624
27DAP/reference	0.93241	0.184
39DAP/reference	0.98848	0.693
41DAP/reference	0.88495	0.019
42DAP/reference	0.89372	0.025
43DAP/reference	0.90808	0.095
47DAP/reference	0.99603	0.687
52DAP/reference	0.83497	0.121
57DAP/reference	0.95995	0.438

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12925	0.966
26DAP/20DAP	1.05704	0.785
34DAP/26DAP	1.06429	1
51DAP/34DAP	1.07449	0.654
52DAP/51DAP	1.21944	0.067
53DAP/52DAP	1.01249	0.935
55DAP/53DAP	1.0953	0.656
57DAP/55DAP	0.97855	0.899
62DAP/57DAP	0.9984	1
68DAP/62DAP	0.94503	0.722
68DAP/14DAP	0.84857	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.35117	0.061

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.90985	0.058
Mature Green Tomato/Ripe Tomato	1.10346	0.814
Immature Eggplant/Mature Eggplant	0.59938	0.062
Ripe Pepper/Ripe Tomato	0.25298	0.224
Mature Eggplant/Ripe Tomato	0.59642	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05931	1
1-1-2/M82	0.95462	1
12-2/M82	1.27263	1
12-4/M82	0.9937	1
1-3/M82	0.9431	0.501
2-1-1/M82	1.02335	1
2-1/M82	1.00348	1
2-6/M82	1.02349	0.594
3-2/M82	0.86242	0.455
4-1-1/M82	1.044	1
4-1/M82	1.0528	1
4-3-2/M82	1.04459	0.508
4-3/M82	1.06581	1
5-3/M82	0.91966	1
6-2/M82	1.04552	1
6-3/M82	1.06605	1
7-1/M82	0.9048	1
7-2/M82	1.07429	1
9-3-2/M82	0.92855	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.70569
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.82534	1
IL12-4/WTpooled	0.99339	1
IL1-4/WTpooled	1.00129
WT/WTpooled	0.95107

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	1.11213	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09914	0.875
DC3000/delta hrp 6h	1.0538	1
DC3000/delta hrp 12h	1.22067	1
DC3000/delta hrp 24h	0.91695	0.387

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.96663	0.803
DC3000 delta B/DC3000 delta AB	0.87265	0.077

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.10194	1
Exp 36h	0.96118	0.879
Exp 60h	0.75558	0.454

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98188	1
Var 0h	0.95863	1
Var 12h I row2-row1	0.82749	0.338
Var 12h NI row2-row1	0.98861	1
Var 36h I row2-row1	0.9922	1
Var 36h NI row2-row1	1.11099	1
Var 60h I row2-row1	1.0236	1
Var 60h NI row2-row1	0.99353	1
Time course 0hI-0hNI	0.93346	0.527
Time course 12hI-12hNI	0.9691	0.752
Time course 36hI-36hNI	0.95538	0.198
Time course 60hI-60hNI	0.48332	0.005

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)	1.03824	0.511
transgenic ySAMdc/azygous control (breaker)	0.52817	0.118
transgenic ySAMdc/azygous control (red)	1.06344	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04847	0.105

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.80909	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.17423	0.14
Manapal/WT (break)	1.24015	0.381
Manapal/WT (red)	0.55901	0.199