Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.18.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.24552	0.755
27DAP/17DAP	1.02025	1
39DAP/27DAP	0.90195	0.608
41DAP/39DAP	1.41862	0.398
42DAP/41DAP	1.14902	1
43DAP/42DAP	1.00552	0.93
47DAP/43DAP	0.90861	0.645
52DAP/47DAP	1.40189	0.635
57DAP/52DAP	0.74606	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97491	0.39
17DAP/reference	1.10438	0.055
27DAP/reference	1.31601	0.009
39DAP/reference	0.981	0.663
41DAP/reference	1.13684	0.022
42DAP/reference	1.18568	0.001
43DAP/reference	1.021	0.812
47DAP/reference	0.91529	0.007
52DAP/reference	0.87511	0.044
57DAP/reference	0.76724	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.24886	0.048
27DAP/17DAP	0.84521	0.475
39DAP/27DAP	1.49299	0.209
41DAP/39DAP	2.41946	0.006
42DAP/41DAP	0.66985	0.007
43DAP/42DAP	0.39924	0.022
47DAP/43DAP	1.1682	0.094
52DAP/47DAP	1.41604	0.19
57DAP/52DAP	1.31215	0.249
57DAP/7DAP	1.93244	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.41695	0.163
17DAP/reference	1.99582	0.006
27DAP/reference	1.58252	0.014
39DAP/reference	2.06733	0.006
41DAP/reference	2.29941	0.009
42DAP/reference	1.74386	0.008
43DAP/reference	1.85109	0.007
47DAP/reference	1.34983	0.03
52DAP/reference	2.13749	0.007
57DAP/reference	3.17023	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92992	0.157
17DAP/reference	1.25056	0.008
27DAP/reference	1.21402	0.063
39DAP/reference	1.32674	0.017
41DAP/reference	1.50174	0.011
42DAP/reference	1.30636	0.009
43DAP/reference	1.61992	0.027
47DAP/reference	1.34209	0.008
52DAP/reference	1.27438	0.006
57DAP/reference	1.58048	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98142	0.566
17DAP/reference	1.02763	0.934
27DAP/reference	2.01902	0.017
39DAP/reference	1.6143	0.008
41DAP/reference	1.38115	0.016
42DAP/reference	0.90834	0.22
43DAP/reference	0.96528	0.545
47DAP/reference	0.83343	0.052
52DAP/reference	1.20113	0.614
57DAP/reference	0.72276	0.018

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00827	1
26DAP/20DAP	0.53017	0.244
34DAP/26DAP	0.80497	0.682
51DAP/34DAP	2.03548
52DAP/51DAP	1.38165	0.503
53DAP/52DAP	1.09763	0.998
55DAP/53DAP	1.19573	0.712
57DAP/55DAP	1.55933	0.559
62DAP/57DAP	1.07453	0.833
68DAP/62DAP	1.12793	0.582
68DAP/14DAP	0.73367	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.40904	0.038

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.49055	0.666
Mature Green Tomato/Ripe Tomato	1.17467	0.363
Immature Eggplant/Mature Eggplant	10.8371	0.05
Ripe Pepper/Ripe Tomato	0.17645	0.224
Mature Eggplant/Ripe Tomato	0.29354	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.7728	0.619
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	0.67808	1
4-3-2/M82	0.91193
4-3/M82	1.38889
5-3/M82	1.08897	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	0.86162	1

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	1.50243	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08759	0.921
DC3000/delta hrp 6h	1.06289	1
DC3000/delta hrp 12h	1.1778	1
DC3000/delta hrp 24h	1.30683	0.043

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.68671	0.102
DC3000 delta B/DC3000 delta AB	2.67977	0.082

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.28291	0.254
Exp 36h	1.65177	0.489
Exp 60h	1.41726	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96305	1
Var 0h	1.06868	0.98
Var 12h I row2-row1	1.16152	0.296
Var 12h NI row2-row1	1.25098	0.34
Var 36h I row2-row1	1.14195	1
Var 36h NI row2-row1	1.04241	1
Var 60h I row2-row1	0.77435	0.582
Var 60h NI row2-row1	0.66654	0.351
Time course 0hI-0hNI	1.13691	0.764
Time course 12hI-12hNI	2.57876	0.004
Time course 36hI-36hNI	4.13178	0.004
Time course 60hI-60hNI	8.26962	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)	1.43849	0.256
transgenic ySAMdc/azygous control (breaker)	0.54377	0.142
transgenic ySAMdc/azygous control (red)	0.93092	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00719	0.854

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.56403	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.61144	0.172
Manapal/WT (break)	0.90391	1
Manapal/WT (red)	0.63154	0.315