Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.6.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16377	0.463
27DAP/17DAP	1.02901	0.926
39DAP/27DAP	0.99429	0.798
41DAP/39DAP	1.19694	0.451
42DAP/41DAP	0.80564	0.774
43DAP/42DAP	1.1813	0.976
47DAP/43DAP	1.26587	0.448
52DAP/47DAP	0.80228	0.518
57DAP/52DAP	1.13887	0.964

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04789	0.96
17DAP/reference	1.28997	0.049
27DAP/reference	0.86979	0.24
39DAP/reference	1.17133	0.079
41DAP/reference	1.20186	0.093
42DAP/reference	0.82319	0.011
43DAP/reference	0.92134	0.163
47DAP/reference	0.89367	0.071
52DAP/reference	0.81399	0.096
57DAP/reference	1.00306	0.58

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.70585	0.109
27DAP/17DAP	1.25354	0.465
39DAP/27DAP	1.08838	0.603
41DAP/39DAP	1.73968	0.439
42DAP/41DAP	1.03674	0.853
43DAP/42DAP	0.99181	0.875
47DAP/43DAP	2.01445	0.69
52DAP/47DAP	1.20906	0.756
57DAP/52DAP	1.22013	0.825
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90376	0.246
17DAP/reference	1.01958	0.822
27DAP/reference	0.99129	0.614
39DAP/reference	0.99747	0.745
41DAP/reference	1.06784	0.836
42DAP/reference	0.98439	0.612
43DAP/reference	0.78061	0.072
47DAP/reference	0.94801	0.504
52DAP/reference	0.75636	0.106
57DAP/reference	0.82881	0.014

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04195	0.802
17DAP/reference	1.26775	0.181
27DAP/reference	0.94428	0.423
39DAP/reference	0.85679	0.214
41DAP/reference	0.84614	0.148
42DAP/reference	0.87585	0.237
43DAP/reference	1.26694	0.239
47DAP/reference	1.02996	0.775
52DAP/reference	1.14947	0.079
57DAP/reference	1.33005	0.03

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98635	0.607
17DAP/reference	1.07316	0.712
27DAP/reference	0.8851	0.067
39DAP/reference	0.98307	0.693
41DAP/reference	1.04923	0.867
42DAP/reference	0.88266	0.108
43DAP/reference	0.72276	0.032
47DAP/reference	0.94955	0.434
52DAP/reference	1.25217	0.363
57DAP/reference	0.72893	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99218	1
26DAP/20DAP	0.93083	1
34DAP/26DAP	0.97461	0.972
51DAP/34DAP	1.09795	1
52DAP/51DAP	0.75458	1
53DAP/52DAP	1.17697	0.868
55DAP/53DAP	0.8378	0.53
57DAP/55DAP	2.95251	0.779
62DAP/57DAP	1.0809	0.622
68DAP/62DAP	0.71188	0.464
68DAP/14DAP	0.78583	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.78791	0.076

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.50187	0.185
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	2.53356

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	0.81791
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	0.89879
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.06046
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	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.12457	0.493
IL2-6/WTpooled	1.04431	0.659
IL7-5/WTpooled	0.9741
IL7-3/WTpooled	1.10013	1
IL12-4/WTpooled	1.09701	0.624
IL1-4/WTpooled	0.90569	0.562
WT/WTpooled	0.9526	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	0.99658	1
DC3000/delta hrp 6h	0.33584
DC3000/delta hrp 12h	1.48889	1
DC3000/delta hrp 24h	0.95363	0.629

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.79232
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	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.07405	0.541
transgenic ySAMdc/azygous control (breaker)	0.95297	1
transgenic ySAMdc/azygous control (red)	1.25464	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98299	0.517

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.76012	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.741	1
Manapal/WT (break)	0.85824	1
Manapal/WT (red)	1.41161	0.413