Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.19.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.28777	0.863
27DAP/17DAP	1.4414	0.683
39DAP/27DAP	4.73059	0.023
41DAP/39DAP	1.17659	0.619
42DAP/41DAP	1.15149	0.843
43DAP/42DAP	1.31275	0.892
47DAP/43DAP	1.60208	0.213
52DAP/47DAP	1.0735	0.934
57DAP/52DAP	2.05122	0.514

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.54081	0.024
17DAP/reference	0.50247	0.007
27DAP/reference	0.64649	0.016
39DAP/reference	0.95519	0.541
41DAP/reference	0.68377	0.01
42DAP/reference	1.14001	0.076
43DAP/reference	1.00923	1
47DAP/reference	2.06914	0.001
52DAP/reference	1.53786	0.008
57DAP/reference	1.694	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04871	0.826
27DAP/17DAP	0.90894	0.821
39DAP/27DAP	1.49757	0.114
41DAP/39DAP	0.70682	0.093
42DAP/41DAP	0.94898	0.635
43DAP/42DAP	1.24751	0.192
47DAP/43DAP	1.45312	0.101
52DAP/47DAP	1.03212	0.962
57DAP/52DAP	1.53916	0.155
57DAP/7DAP	2.47372	0.207

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.59597	0.039
17DAP/reference	0.641	0.012
27DAP/reference	0.82627	0.026
39DAP/reference	1.1007	0.601
41DAP/reference	1.35061	0.056
42DAP/reference	1.54808	0.018
43DAP/reference	1.13753	0.569
47DAP/reference	1.01042	0.965
52DAP/reference	1.68536	0.012
57DAP/reference	3.21224	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.50024	0.005
17DAP/reference	0.4597	0.003
27DAP/reference	0.76858	0.022
39DAP/reference	0.83489	0.044
41DAP/reference	1.04447	0.878
42DAP/reference	1.03487	0.863
43DAP/reference	0.82287	0.135
47DAP/reference	2.00354	0.019
52DAP/reference	1.06344	0.368
57DAP/reference	1.09025	0.737

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.63568	0.021
17DAP/reference	0.80048	0.224
27DAP/reference	1.00897	0.883
39DAP/reference	1.36886	0.022
41DAP/reference	1.236	0.022
42DAP/reference	1.48519	0.018
43DAP/reference	1.4783	0.015
47DAP/reference	1.59026	0.009
52DAP/reference	2.16633	0.035
57DAP/reference	2.01499	0.014

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.2771	0.496
26DAP/20DAP	1.35898	0.415
34DAP/26DAP	1.07407	1
51DAP/34DAP	2.77593	0.025
52DAP/51DAP	0.72568	0.151
53DAP/52DAP	1.53212	0.03
55DAP/53DAP	0.43246	0.016
57DAP/55DAP	0.76657	0.159
62DAP/57DAP	2.3652	0.002
68DAP/62DAP	1.51178	0.298
68DAP/14DAP	3.69878	0.017

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91582	0.378

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.04088	0.036
Mature Green Tomato/Ripe Tomato	0.2624	0.014
Immature Eggplant/Mature Eggplant	62.3882	0.05
Ripe Pepper/Ripe Tomato	1.73791	0.256
Mature Eggplant/Ripe Tomato	0.4971	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91437	0.736
1-1-2/M82	1.70529	1
12-2/M82	1.10626	1
12-4/M82	0.94831	1
1-3/M82	5.30869
2-1-1/M82	0.95417	1
2-1/M82	1.03949	1
2-6/M82	1.35625	0.352
3-2/M82	0.99922	1
4-1-1/M82	2.2135	0.998
4-1/M82	0.51093
4-3-2/M82	1.8753	0.508
4-3/M82	1.30295	1
5-3/M82	0.43806	0.447
6-2/M82	0.5709
6-3/M82	0.9831	1
7-1/M82	0.79575	0.803
7-2/M82	2.70476	0.385
9-3-2/M82	2.29232	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.99425	1
IL2-6/WTpooled	1.08656	1
IL7-5/WTpooled	0.567	1
IL7-3/WTpooled	0.69281
IL12-4/WTpooled	0.95501	1
IL1-4/WTpooled	0.91313	0.699
WT/WTpooled	1.16467	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	1.31484	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	1.07932	1
DC3000/delta hrp 12h	1.21412	1
DC3000/delta hrp 24h	0.99402	0.769

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.83537
DC3000 delta B/DC3000 delta AB	1.74661	0.095

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.28635	1
Exp 36h	1.00018	1
Exp 60h	1.03037	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9924	1
Var 0h	1.19081	0.594
Var 12h I row2-row1	0.8338	0.514
Var 12h NI row2-row1	1.6727	0.34
Var 36h I row2-row1	1.12912	1
Var 36h NI row2-row1	0.64692	0.549
Var 60h I row2-row1	0.55629	0.285
Var 60h NI row2-row1	0.62135	0.301
Time course 0hI-0hNI	1.15388	0.451
Time course 12hI-12hNI	1.41353	0.186
Time course 36hI-36hNI	3.2067	0.004
Time course 60hI-60hNI	11.7864	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)	0.55886	0.314
transgenic ySAMdc/azygous control (breaker)	0.7248	0.131
transgenic ySAMdc/azygous control (red)	1.24315	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.61275	0.234

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.89888	0.255

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	5.88309	0.093
Manapal/WT (break)	4.46807	0.183
Manapal/WT (red)	1.35501	0.15