Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.10.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.79579	0.297
27DAP/17DAP	0.86649	0.641
39DAP/27DAP	1.01402	0.798
41DAP/39DAP	0.90281	0.636
42DAP/41DAP	0.93199	1
43DAP/42DAP	1.02514	0.948
47DAP/43DAP	0.61576	0.09
52DAP/47DAP	1.15034	0.699
57DAP/52DAP	0.79668	0.803

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02293	0.824
17DAP/reference	1.13299	0.112
27DAP/reference	0.99518	0.822
39DAP/reference	1.13923	0.091
41DAP/reference	1.28017	0.013
42DAP/reference	0.93181	0.169
43DAP/reference	1.11715	0.053
47DAP/reference	1.00056	0.602
52DAP/reference	0.82169	0.058
57DAP/reference	0.90746	0.118

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87331	0.245
27DAP/17DAP	0.98715	0.943
39DAP/27DAP	1.02981	1
41DAP/39DAP	0.74615	0.015
42DAP/41DAP	1.25499	0.065
43DAP/42DAP	0.73957	0.033
47DAP/43DAP	0.9815	0.911
52DAP/47DAP	0.91857	0.77
57DAP/52DAP	0.99446	0.845
57DAP/7DAP	0.54858	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.70006	0.025
17DAP/reference	1.32472	0.018
27DAP/reference	0.98043	0.494
39DAP/reference	1.06296	0.436
41DAP/reference	1.04677	0.791
42DAP/reference	1.22443	0.132
43DAP/reference	0.98243	0.48
47DAP/reference	1.01195	1
52DAP/reference	1.05739	0.526
57DAP/reference	1.03833	0.698

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10997	0.679
17DAP/reference	1.06241	0.543
27DAP/reference	0.92597	0.257
39DAP/reference	0.7833	0.065
41DAP/reference	0.99597	0.615
42DAP/reference	0.93678	0.321
43DAP/reference	0.95893	0.494
47DAP/reference	1.01943	0.775
52DAP/reference	1.05241	0.596
57DAP/reference	1.05856	0.908

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.71535	0.025
17DAP/reference	1.39624	0.146
27DAP/reference	1.26978	0.048
39DAP/reference	1.22781	0.035
41DAP/reference	1.02257	0.939
42DAP/reference	0.98884	0.671
43DAP/reference	1.04529	1
47DAP/reference	1.24816	0.042
52DAP/reference	1.08911	0.674
57DAP/reference	0.97088	0.509

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04681	1
26DAP/20DAP	1.15415	0.598
34DAP/26DAP	1.53037	0.542
51DAP/34DAP	0.53916	0.323
52DAP/51DAP	1.3214	0.349
53DAP/52DAP	0.75285	0.259
55DAP/53DAP	1.06007	1
57DAP/55DAP	1.78696	0.793
62DAP/57DAP	0.95185	0.871
68DAP/62DAP	1.11469	0.722
68DAP/14DAP	0.81854	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96462	0.635

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.39528	0.058
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.61177	0.064
Ripe Pepper/Ripe Tomato	1.06052	1
Mature Eggplant/Ripe Tomato	1.27687	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.12132	0.877
1-1-2/M82	1.03514	1
12-2/M82	0.7533	0.448
12-4/M82	0.87914	0.358
1-3/M82	0.93522	1
2-1-1/M82	0.88577	0.92
2-1/M82	0.6969	0.345
2-6/M82	1.26859	0.335
3-2/M82	1.10514
4-1-1/M82	1.10165	1
4-1/M82	0.63162
4-3-2/M82	1.47356
4-3/M82	1.27746	1
5-3/M82	1.00806	1
6-2/M82	1.13836	1
6-3/M82	0.95505	1
7-1/M82	1.02601	1
7-2/M82	1.13076	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.24144	0.365
IL2-6/WTpooled	0.93178	1
IL7-5/WTpooled	0.92359	1
IL7-3/WTpooled	0.9419	1
IL12-4/WTpooled	1.16941	0.785
IL1-4/WTpooled	0.93059	0.562
WT/WTpooled	0.96385	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	1.36187	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96545	1
DC3000/delta hrp 6h	0.8571	0.95
DC3000/delta hrp 12h	0.8348	1
DC3000/delta hrp 24h	0.7348	0.061

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.08953	0.515
DC3000 delta B/DC3000 delta AB	1.12853	0.381

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06802	1
Exp 36h	1.01099	1
Exp 60h	1.05849	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00018	1
Var 0h	0.98175	1
Var 12h I row2-row1	1.1465	0.222
Var 12h NI row2-row1	0.86071	0.82
Var 36h I row2-row1	0.89605	0.805
Var 36h NI row2-row1	1.00789	1
Var 60h I row2-row1	0.91569	0.374
Var 60h NI row2-row1	0.95736	1
Time course 0hI-0hNI	1.02598	0.799
Time course 12hI-12hNI	1.07753	0.134
Time course 36hI-36hNI	0.89719	0.046
Time course 60hI-60hNI	0.78022	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)	1.15981	0.612
transgenic ySAMdc/azygous control (breaker)	1.09375	1
transgenic ySAMdc/azygous control (red)	1.07761	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96017	0.09

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.89621	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.24892	0.096
Manapal/WT (break)	0.77253	0.333
Manapal/WT (red)	2.48894	0.222