Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.15.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91458	0.532
27DAP/17DAP	1.03443	0.994
39DAP/27DAP	1.23568	0.493
41DAP/39DAP	0.86008	0.561
42DAP/41DAP	0.92033	1
43DAP/42DAP	1.24075	0.595
47DAP/43DAP	1.24327	0.278
52DAP/47DAP	0.5798	0.051
57DAP/52DAP	0.9873	0.982

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04013	0.872
17DAP/reference	0.9726	0.474
27DAP/reference	0.97934	0.514
39DAP/reference	1.00738	0.889
41DAP/reference	1.10317	0.058
42DAP/reference	1.05639	0.151
43DAP/reference	1.00339	1
47DAP/reference	1.0285	0.794
52DAP/reference	0.96911	0.449
57DAP/reference	0.95338	0.138

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10833	0.642
27DAP/17DAP	1.01288	0.943
39DAP/27DAP	0.69484	0.093
41DAP/39DAP	0.81756	0.434
42DAP/41DAP	0.93039	0.635
43DAP/42DAP	1.02742	0.788
47DAP/43DAP	0.98646	0.939
52DAP/47DAP	1.09736	0.756
57DAP/52DAP	1.02167	0.852
57DAP/7DAP	0.80361	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82209	0.044
17DAP/reference	0.90681	0.192
27DAP/reference	1.10918	0.131
39DAP/reference	1.06514	0.865
41DAP/reference	1.10919	0.56
42DAP/reference	0.85464	0.024
43DAP/reference	0.96712	0.502
47DAP/reference	0.88135	0.222
52DAP/reference	0.94776	0.398
57DAP/reference	0.9171	0.109

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12729	0.39
17DAP/reference	1.18381	0.037
27DAP/reference	1.15425	0.163
39DAP/reference	1.1886	0.054
41DAP/reference	1.25775	0.118
42DAP/reference	1.0228	1
43DAP/reference	1.33274	0.152
47DAP/reference	1.07075	0.264
52DAP/reference	1.16839	0.017
57DAP/reference	1.12871	0.146

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03992	0.809
17DAP/reference	1.0056	0.839
27DAP/reference	1.05941	0.325
39DAP/reference	0.96071	0.43
41DAP/reference	1.13196	0.231
42DAP/reference	1.08551	0.612
43DAP/reference	1.07535	0.58
47DAP/reference	1.05957	0.585
52DAP/reference	0.89149	0.376
57DAP/reference	1.14649	0.16

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01479	0.966
26DAP/20DAP	0.99014	1
34DAP/26DAP	1.46285	0.304
51DAP/34DAP	1.3343	0.785
52DAP/51DAP	1.07607	0.606
53DAP/52DAP	1.12426	0.935
55DAP/53DAP	1.14289	0.656
57DAP/55DAP	1.2265	0.881
62DAP/57DAP	0.84467	0.28
68DAP/62DAP	0.97109	0.81
68DAP/14DAP	0.88456	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.60644	0.041

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.30482	0.417
Mature Green Tomato/Ripe Tomato	1.15752	0.752
Immature Eggplant/Mature Eggplant	1.22913	0.19
Ripe Pepper/Ripe Tomato	0.91368	1
Mature Eggplant/Ripe Tomato	1.07836	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.53367
1-1-2/M82	1.12203
12-2/M82	N/A	N/A
12-4/M82	1.0089	1
1-3/M82	N/A	N/A
2-1-1/M82	1.62639
2-1/M82	N/A	N/A
2-6/M82	0.98756	1
3-2/M82	1.01562
4-1-1/M82	N/A	N/A
4-1/M82	1.46142
4-3-2/M82	0.9133
4-3/M82	N/A	N/A
5-3/M82	0.95644	1
6-2/M82	1.00154
6-3/M82	1.11108	1
7-1/M82	0.93472
7-2/M82	0.84249	0.881
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	1.16972	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05768	0.921
DC3000/delta hrp 6h	1.09839	1
DC3000/delta hrp 12h	1.00441	1
DC3000/delta hrp 24h	0.98291	0.945

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.68696
DC3000 delta B/DC3000 delta AB	0.85633	0.529

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.45842	1
Exp 36h	1.09345	0.693
Exp 60h	1.14754	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98772	1
Var 0h	1.12978	0.594
Var 12h I row2-row1	0.90539	0.39
Var 12h NI row2-row1	0.79191	0.394
Var 36h I row2-row1	0.90048	0.125
Var 36h NI row2-row1	1.30545	0.482
Var 60h I row2-row1	0.79377	0.832
Var 60h NI row2-row1	0.87087	0.977
Time course 0hI-0hNI	1.03371	0.852
Time course 12hI-12hNI	0.94704	0.618
Time course 36hI-36hNI	0.78162	0.034
Time course 60hI-60hNI	0.42769	0.006

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)	1.08064	0.305
transgenic ySAMdc/azygous control (breaker)	1.08635	0.178
transgenic ySAMdc/azygous control (red)	1.0068	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9356	0.055

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.94265	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.87556	1
Manapal/WT (break)	0.92035	1
Manapal/WT (red)	1.31324	0.222