Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.17.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98491	0.858
27DAP/17DAP	1.21214	0.809
39DAP/27DAP	1.09283	0.974
41DAP/39DAP	1.58674	0.408
42DAP/41DAP	1.32756	0.745
43DAP/42DAP	1.00557	0.937
47DAP/43DAP	1.13344	0.576
52DAP/47DAP	1.17396	0.67
57DAP/52DAP	0.97169	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9576	0.352
17DAP/reference	1.02083	0.717
27DAP/reference	1.03101	0.599
39DAP/reference	1.05417	0.101
41DAP/reference	1.09731	0.393
42DAP/reference	0.99204	0.501
43DAP/reference	0.94804	0.538
47DAP/reference	0.95962	0.148
52DAP/reference	0.91819	0.258
57DAP/reference	0.87747	0.068

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97745	0.679
27DAP/17DAP	0.92525	0.39
39DAP/27DAP	1.05501	0.575
41DAP/39DAP	1.11072	0.469
42DAP/41DAP	0.97468	0.757
43DAP/42DAP	0.9486	0.256
47DAP/43DAP	1.02149	0.837
52DAP/47DAP	1.0468	0.816
57DAP/52DAP	1.01916	1
57DAP/7DAP	1.1477	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77551	0.1
17DAP/reference	0.76574	0.011
27DAP/reference	0.70893	0.01
39DAP/reference	0.85814	0.015
41DAP/reference	0.84221	0.023
42DAP/reference	0.82214	0.017
43DAP/reference	0.83609	0.069
47DAP/reference	0.81157	0.027
52DAP/reference	0.8005	0.014
57DAP/reference	0.81628	0.027

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02142	0.758
17DAP/reference	0.98474	0.659
27DAP/reference	0.82468	0.067
39DAP/reference	0.93687	0.339
41DAP/reference	0.80418	0.037
42DAP/reference	0.83093	0.046
43DAP/reference	0.92748	0.269
47DAP/reference	0.8402	0.079
52DAP/reference	0.95543	0.111
57DAP/reference	1.06523	0.688

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81859	0.041
17DAP/reference	0.92023	0.444
27DAP/reference	0.75728	0.031
39DAP/reference	0.74969	0.016
41DAP/reference	0.84077	0.043
42DAP/reference	0.7411	0.036
43DAP/reference	0.76315	0.037
47DAP/reference	0.92203	0.278
52DAP/reference	0.77097	0.177
57DAP/reference	0.59263	0.022

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97073	1
26DAP/20DAP	0.93956	0.512
34DAP/26DAP	1.03551	1
51DAP/34DAP	0.98663	0.883
52DAP/51DAP	0.96173	1
53DAP/52DAP	1.03344	0.935
55DAP/53DAP	1.01991	1
57DAP/55DAP	0.93452	0.677
62DAP/57DAP	0.96903	0.994
68DAP/62DAP	1.02707	1
68DAP/14DAP	0.95787	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98738	0.665

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.972	0.611
Immature Eggplant/Mature Eggplant	0.96131
Ripe Pepper/Ripe Tomato	1.31172	1
Mature Eggplant/Ripe Tomato	0.38385	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.8417	0.841
1-1-2/M82	0.8412	1
12-2/M82	1.10204	1
12-4/M82	0.85502	1
1-3/M82	0.9285	0.378
2-1-1/M82	1.11694	0.689
2-1/M82	0.90465	0.318
2-6/M82	1.02801	1
3-2/M82	0.75205	1
4-1-1/M82	0.89871	1
4-1/M82	0.86669	1
4-3-2/M82	0.60485	0.698
4-3/M82	0.95255	1
5-3/M82	0.95652	1
6-2/M82	0.82293	0.497
6-3/M82	1.0696	1
7-1/M82	0.93713	0.509
7-2/M82	1.11543	1
9-3-2/M82	0.53219	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.01101	0.493
IL2-6/WTpooled	1.03969	0.788
IL7-5/WTpooled	0.82399	1
IL7-3/WTpooled	1.22752	1
IL12-4/WTpooled	0.9808	1
IL1-4/WTpooled	1.2494	1
WT/WTpooled	0.95847	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	1.0165	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02406	0.921
DC3000/delta hrp 6h	1.00773	0.95
DC3000/delta hrp 12h	1.09258	1
DC3000/delta hrp 24h	1.02186	0.728

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.06173	0.515
DC3000 delta B/DC3000 delta AB	0.99246	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.08041	1
Exp 36h	1.43469	1
Exp 60h	1.11921	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9808	1
Var 0h	1.03389	1
Var 12h I row2-row1	1.07111	0.235
Var 12h NI row2-row1	0.9914	1
Var 36h I row2-row1	0.79026	0.575
Var 36h NI row2-row1	0.90314	0.522
Var 60h I row2-row1	1.2697	0.562
Var 60h NI row2-row1	1.22644	0.904
Time course 0hI-0hNI	1.08827	0.852
Time course 12hI-12hNI	1.04077	0.785
Time course 36hI-36hNI	0.95764	0.373
Time course 60hI-60hNI	1.12109	0.08

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)	0.81468	0.409
transgenic ySAMdc/azygous control (breaker)	1.3972	1
transgenic ySAMdc/azygous control (red)	0.85975	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.22544	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.78689	0.105
Manapal/WT (break)	0.84647	1
Manapal/WT (red)	1.18569	0.413