Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.20.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81445	0.318
27DAP/17DAP	0.89118	0.763
39DAP/27DAP	0.89044	0.608
41DAP/39DAP	1.28743	0.32
42DAP/41DAP	1.21902	0.941
43DAP/42DAP	0.8734	0.827
47DAP/43DAP	0.84911	0.526
52DAP/47DAP	1.64973	0.641
57DAP/52DAP	0.90963	0.89

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93767	0.3
17DAP/reference	0.97245	0.63
27DAP/reference	1.06548	0.306
39DAP/reference	0.99768	0.855
41DAP/reference	1.00651	1
42DAP/reference	0.90659	0.013
43DAP/reference	0.89483	0.135
47DAP/reference	0.92937	0.042
52DAP/reference	1.00113	1
57DAP/reference	0.97228	0.415

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.56001	0.105
27DAP/17DAP	1.25698	0.114
39DAP/27DAP	0.87363	0.211
41DAP/39DAP	0.88571	0.465
42DAP/41DAP	0.95527	0.641
43DAP/42DAP	0.75874	0.045
47DAP/43DAP	1.03017	0.939
52DAP/47DAP	1.19624	0.508
57DAP/52DAP	1.09971	0.5
57DAP/7DAP	1.09422	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11156	0.435
17DAP/reference	1.77475	0.008
27DAP/reference	1.37847	0.017
39DAP/reference	1.46975	0.011
41DAP/reference	1.44064	0.021
42DAP/reference	1.13066	0.534
43DAP/reference	1.0359	1
47DAP/reference	1.13466	0.241
52DAP/reference	0.94132	0.213
57DAP/reference	1.00515	0.831

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85757	0.09
17DAP/reference	0.98707	0.642
27DAP/reference	0.90999	0.24
39DAP/reference	0.84511	0.108
41DAP/reference	0.88074	0.064
42DAP/reference	0.88479	0.081
43DAP/reference	1.03718	0.863
47DAP/reference	0.83754	0.017
52DAP/reference	1.01134	1
57DAP/reference	0.84866	0.018

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85591	0.197
17DAP/reference	1.04113	0.924
27DAP/reference	1.39643	0.035
39DAP/reference	1.06909	0.813
41DAP/reference	1.09105	0.231
42DAP/reference	1.00309	0.816
43DAP/reference	1.01131	0.894
47DAP/reference	0.85589	0.043
52DAP/reference	0.79864	0.112
57DAP/reference	0.93897	0.333

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.81894	0.611
26DAP/20DAP	1.23193	0.713
34DAP/26DAP	1.02702	1
51DAP/34DAP	1.52539	0.035
52DAP/51DAP	0.93794	1
53DAP/52DAP	1.22023	0.623
55DAP/53DAP	0.84293	0.325
57DAP/55DAP	1.02129	0.925
62DAP/57DAP	1.49147	0.723
68DAP/62DAP	1.59759	0.089
68DAP/14DAP	2.07205	0.366

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.04599	0.954

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.72526	0.202
Mature Green Tomato/Ripe Tomato	1.57141	0.058
Immature Eggplant/Mature Eggplant	1.1414	0.096
Ripe Pepper/Ripe Tomato	1.18833	1
Mature Eggplant/Ripe Tomato	0.83603	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.41426	1
12-2/M82	1.14577
12-4/M82	0.94624	1
1-3/M82	N/A	N/A
2-1-1/M82	0.86064	0.683
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.59428
4-1-1/M82	N/A	N/A
4-1/M82	0.74319
4-3-2/M82	0.86256
4-3/M82	0.92715	1
5-3/M82	1.0448	1
6-2/M82	0.84899
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.05191	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	2.59695	0.277
IL2-6/WTpooled	0.95857	1
IL7-5/WTpooled	0.93224	1
IL7-3/WTpooled	1.30504	1
IL12-4/WTpooled	1.06943	0.695
IL1-4/WTpooled	2.39506	1
WT/WTpooled	1.04132	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	1.01342	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.13292	1
DC3000/delta hrp 6h	1.24454	1
DC3000/delta hrp 12h	1.17991	1
DC3000/delta hrp 24h	1.93285

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.31607	1
Exp 36h	0.99575	1
Exp 60h	1.16906	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00908	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.95128	0.565
Var 12h NI row2-row1	1.00023	1
Var 36h I row2-row1	0.89314	1
Var 36h NI row2-row1	1.08976	1
Var 60h I row2-row1	1.02445	1
Var 60h NI row2-row1	0.85423	0.866
Time course 0hI-0hNI	1.05711	0.603
Time course 12hI-12hNI	0.94474	0.431
Time course 36hI-36hNI	0.91519	0.129
Time course 60hI-60hNI	0.7787	0.009

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)	1.04268	0.408
transgenic ySAMdc/azygous control (breaker)	0.96105	0.49
transgenic ySAMdc/azygous control (red)	1.0094	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.12071	0.038

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.04232	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.02515	1
Manapal/WT (break)	0.9753	1
Manapal/WT (red)	0.57173	0.184