Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.20.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95776	0.689
27DAP/17DAP	1.26437	0.833
39DAP/27DAP	0.84896	0.549
41DAP/39DAP	1.13005	0.37
42DAP/41DAP	1.00346	1
43DAP/42DAP	0.95823	0.9
47DAP/43DAP	1.09397	0.825
52DAP/47DAP	0.99427	0.88
57DAP/52DAP	1.02317	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04509	0.872
17DAP/reference	1.09681	0.019
27DAP/reference	1.02395	0.75
39DAP/reference	1.03779	0.229
41DAP/reference	1.06012	0.759
42DAP/reference	0.99095	0.469
43DAP/reference	0.98225	0.708
47DAP/reference	0.96423	0.258
52DAP/reference	0.76026	0.084
57DAP/reference	0.79661	0.068

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93288	0.299
27DAP/17DAP	0.97707	0.878
39DAP/27DAP	1.1705	0.214
41DAP/39DAP	1.0712	0.896
42DAP/41DAP	1.01827	1
43DAP/42DAP	1.00872	0.83
47DAP/43DAP	1.06627	0.601
52DAP/47DAP	1.00373	0.987
57DAP/52DAP	1.00132	0.926
57DAP/7DAP	1.04171	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92843	0.203
17DAP/reference	0.72034	0.012
27DAP/reference	0.82093	0.01
39DAP/reference	0.74899	0.011
41DAP/reference	0.76253	0.019
42DAP/reference	0.78476	0.012
43DAP/reference	0.85915	0.024
47DAP/reference	0.88267	0.293
52DAP/reference	0.94056	0.363
57DAP/reference	0.99648	0.648

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02785	0.741
17DAP/reference	0.99916	0.711
27DAP/reference	1.24366	0.367
39DAP/reference	1.02114	1
41DAP/reference	0.91655	0.188
42DAP/reference	0.87685	0.061
43DAP/reference	0.99215	0.748
47DAP/reference	0.90356	0.145
52DAP/reference	1.01277	0.747
57DAP/reference	1.01566	0.916

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88957	0.183
17DAP/reference	0.9733	0.636
27DAP/reference	0.74062	0.036
39DAP/reference	0.76183	0.022
41DAP/reference	0.92169	0.264
42DAP/reference	0.81317	0.071
43DAP/reference	0.98845	0.614
47DAP/reference	1.00614	0.687
52DAP/reference	0.7831	0.148
57DAP/reference	0.9112	0.394

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03794	0.966
26DAP/20DAP	0.89804	0.512
34DAP/26DAP	1.02394	1
51DAP/34DAP	1.02355	0.84
52DAP/51DAP	0.98175	1
53DAP/52DAP	0.96899	0.854
55DAP/53DAP	1.13443	0.527
57DAP/55DAP	0.91789	0.664
62DAP/57DAP	1.1582	0.393
68DAP/62DAP	1.06099	0.95
68DAP/14DAP	0.99076	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.00426	0.737

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.71921
Mature Green Tomato/Ripe Tomato	0.79754	0.256
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.92058	0.224
Mature Eggplant/Ripe Tomato	0.37958	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.90285	0.634
1-1-2/M82	0.98665	1
12-2/M82	1.07151	1
12-4/M82	0.87147	0.619
1-3/M82	0.94948	1
2-1-1/M82	1.17587	0.375
2-1/M82	1.13452
2-6/M82	1.24154	0.695
3-2/M82	0.75816
4-1-1/M82	1.04436	1
4-1/M82	0.82015	1
4-3-2/M82	0.82297	0.698
4-3/M82	0.85758	1
5-3/M82	0.89909	0.642
6-2/M82	0.95151	1
6-3/M82	1.0524	1
7-1/M82	0.98288	1
7-2/M82	1.02473	1
9-3-2/M82	0.9632	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.02539	1
IL2-6/WTpooled	0.9684	1
IL7-5/WTpooled	1.21249	0.792
IL7-3/WTpooled	1.029	1
IL12-4/WTpooled	1.32403	0.646
IL1-4/WTpooled	1.03598	1
WT/WTpooled	1.05703	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94462	1
DC3000/delta hrp 6h	0.81145	0.937
DC3000/delta hrp 12h	1.35404	1
DC3000/delta hrp 24h	0.9629	0.818

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.30822	0.25
DC3000 delta B/DC3000 delta AB	6.99197

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.25298	1
Exp 36h	1.57706	0.489
Exp 60h	1.61803	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94612	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.04639	0.58
Var 12h NI row2-row1	0.87845	0.546
Var 36h I row2-row1	0.86773	0.805
Var 36h NI row2-row1	0.95762	0.706
Var 60h I row2-row1	1.19653	0.562
Var 60h NI row2-row1	1.21505	0.904
Time course 0hI-0hNI	1.11353	0.799
Time course 12hI-12hNI	1.01251	0.892
Time course 36hI-36hNI	1.01244	1
Time course 60hI-60hNI	1.51499	0.008

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)	1.16372	0.699
transgenic ySAMdc/azygous control (breaker)	0.91971	0.49
transgenic ySAMdc/azygous control (red)	1.01913	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95409	0.277

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.99672	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.84396	1
Manapal/WT (break)	1.02334	1
Manapal/WT (red)	0.88093	0.229