Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.2.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00037	0.911
27DAP/17DAP	0.80293	0.494
39DAP/27DAP	1.45799	0.201
41DAP/39DAP	0.75076	0.152
42DAP/41DAP	1.08493	0.974
43DAP/42DAP	0.80487	0.468
47DAP/43DAP	0.92212	0.701
52DAP/47DAP	0.94409	0.803
57DAP/52DAP	1.10941	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15576	0.35
17DAP/reference	1.03921	0.717
27DAP/reference	0.88553	0.215
39DAP/reference	0.95915	0.404
41DAP/reference	1.02178	0.624
42DAP/reference	1.08642	0.299
43DAP/reference	1.09358	0.269
47DAP/reference	1.0565	0.524
52DAP/reference	1.07465	0.791
57DAP/reference	1.17178	0.017

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93427	0.245
27DAP/17DAP	1.11383	0.426
39DAP/27DAP	0.87603	0.089
41DAP/39DAP	1.07797	0.801
42DAP/41DAP	0.92458	0.453
43DAP/42DAP	0.91842	0.293
47DAP/43DAP	1.04924	0.708
52DAP/47DAP	0.928	0.624
57DAP/52DAP	1.04717	0.813
57DAP/7DAP	0.77873	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.48331	0.036
17DAP/reference	1.40843	0.006
27DAP/reference	1.29097	0.013
39DAP/reference	1.36675	0.006
41DAP/reference	1.3277	0.015
42DAP/reference	1.39528	0.03
43DAP/reference	1.29999	0.053
47DAP/reference	1.22415	0.13
52DAP/reference	1.56182	0.007
57DAP/reference	1.344	0.024

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.42882	0.078
17DAP/reference	1.09912	0.628
27DAP/reference	1.34703	0.025
39DAP/reference	1.3312	0.066
41DAP/reference	1.08611	0.382
42DAP/reference	1.23682	0.015
43DAP/reference	1.17059	0.392
47DAP/reference	1.3576	0.018
52DAP/reference	0.8365	0.021
57DAP/reference	1.0069	0.68

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.50332	0.015
17DAP/reference	1.13199	0.398
27DAP/reference	1.06932	0.425
39DAP/reference	1.24326	0.009
41DAP/reference	1.17597	0.016
42DAP/reference	1.17351	0.121
43DAP/reference	1.12418	0.28
47DAP/reference	0.94715	0.371
52DAP/reference	1.47975	0.102
57DAP/reference	1.35434	0.058

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.87442	0.89
26DAP/20DAP	1.293	0.212
34DAP/26DAP	0.8583	0.455
51DAP/34DAP	0.92821	0.546
52DAP/51DAP	0.91324	1
53DAP/52DAP	0.89058	0.52
55DAP/53DAP	0.79346	0.088
57DAP/55DAP	1.52462	0.075
62DAP/57DAP	1.24472	0.833
68DAP/62DAP	0.75176	0.177
68DAP/14DAP	1.28285	0.311

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.35049	0.047

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.88066	0.384
Mature Green Tomato/Ripe Tomato	1.13666	0.077
Immature Eggplant/Mature Eggplant	1.14414	0.222
Ripe Pepper/Ripe Tomato	1.14364	1
Mature Eggplant/Ripe Tomato	1.07429	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99929	1
1-1-2/M82	1.2241	0.977
12-2/M82	1.13042	0.61
12-4/M82	0.96698	1
1-3/M82	1.32236	1
2-1-1/M82	1.02453	1
2-1/M82	0.93943	0.74
2-6/M82	1.04966	1
3-2/M82	1.05305	0.967
4-1-1/M82	0.96329	1
4-1/M82	1.41236
4-3-2/M82	1.37638	1
4-3/M82	1.30496	0.268
5-3/M82	1.15137	1
6-2/M82	0.79894	1
6-3/M82	0.99542	1
7-1/M82	0.98379	1
7-2/M82	1.06103	1
9-3-2/M82	0.93773

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.46644	0.243
IL2-6/WTpooled	0.87941	1
IL7-5/WTpooled	1.21993	1
IL7-3/WTpooled	1.40498	1
IL12-4/WTpooled	1.03137	1
IL1-4/WTpooled	1.02799	1
WT/WTpooled	0.96206	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	1.08159	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01478	0.921
DC3000/delta hrp 6h	0.86051	0.95
DC3000/delta hrp 12h	0.89182	1
DC3000/delta hrp 24h	1.0492	0.69

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.05319	0.313
DC3000 delta B/DC3000 delta AB	0.93224	0.456

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.89764	1
Exp 36h	1.06897	1
Exp 60h	1.08038	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97077	1
Var 0h	1.02944	1
Var 12h I row2-row1	0.97667	0.948
Var 12h NI row2-row1	1.01686	1
Var 36h I row2-row1	1.21661	0.309
Var 36h NI row2-row1	0.94207	0.743
Var 60h I row2-row1	0.97381	0.832
Var 60h NI row2-row1	0.8494	0.359
Time course 0hI-0hNI	0.87069	0.101
Time course 12hI-12hNI	0.97981	0.87
Time course 36hI-36hNI	1.1385	0.28
Time course 60hI-60hNI	0.8463	0.161

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)	0.96068	0.567
transgenic ySAMdc/azygous control (breaker)	1.2886	0.248
transgenic ySAMdc/azygous control (red)	1.1099	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.1359	0.055

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.70078	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.01049	1
Manapal/WT (break)	1.25854	0.381
Manapal/WT (red)	1.08612	0.413