Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.18.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99445	0.858
27DAP/17DAP	0.8666	0.644
39DAP/27DAP	1.01774	0.84
41DAP/39DAP	0.91393	0.675
42DAP/41DAP	0.92028	1
43DAP/42DAP	0.76869	0.598
47DAP/43DAP	1.16917	0.4
52DAP/47DAP	1.15875	0.828
57DAP/52DAP	1.0434	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23397	0.057
17DAP/reference	1.07173	0.457
27DAP/reference	0.96574	0.538
39DAP/reference	1.01795	0.871
41DAP/reference	0.93609	0.154
42DAP/reference	1.00536	0.707
43DAP/reference	1.00743	1
47DAP/reference	1.02287	1
52DAP/reference	1.05	1
57DAP/reference	1.00571	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18653	0.34
27DAP/17DAP	1.28428	0.328
39DAP/27DAP	1.23912	0.343
41DAP/39DAP	0.99805	1
42DAP/41DAP	0.93365	0.583
43DAP/42DAP	0.74952	0.051
47DAP/43DAP	1.19602	0.389
52DAP/47DAP	1.00776	0.959
57DAP/52DAP	1.37801	0.162
57DAP/7DAP	1.16954	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92748	0.27
17DAP/reference	0.84763	0.014
27DAP/reference	0.85247	0.012
39DAP/reference	0.90171	0.064
41DAP/reference	0.88736	0.127
42DAP/reference	0.8746	0.05
43DAP/reference	0.74947	0.016
47DAP/reference	0.9486	0.293
52DAP/reference	0.79291	0.02
57DAP/reference	1.0005	0.494

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95508	0.532
17DAP/reference	1.10894	0.176
27DAP/reference	1.18332	0.174
39DAP/reference	1.05494	0.912
41DAP/reference	1.11229	0.491
42DAP/reference	1.0053	0.723
43DAP/reference	1.17833	0.117
47DAP/reference	1.01932	0.965
52DAP/reference	1.09531	0.3
57DAP/reference	1.04557	0.654

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94398	0.391
17DAP/reference	0.85161	0.205
27DAP/reference	0.74302	0.049
39DAP/reference	0.67036	0.018
41DAP/reference	0.78225	0.055
42DAP/reference	0.80059	0.049
43DAP/reference	0.81884	0.037
47DAP/reference	1.02436	1
52DAP/reference	0.7493	0.122
57DAP/reference	2.01574	0.171

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03216	1
26DAP/20DAP	0.99493	1
34DAP/26DAP	0.68664	0.488
51DAP/34DAP	0.91353	0.571
52DAP/51DAP	1.0519	1
53DAP/52DAP	1.01511	1
55DAP/53DAP	0.90964	0.563
57DAP/55DAP	1.05748	1
62DAP/57DAP	1.18283	0.935
68DAP/62DAP	1.36257	0.331
68DAP/14DAP	0.86095	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.44657	0.347

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.21561	0.068
Mature Green Tomato/Ripe Tomato	0.76088	0.226
Immature Eggplant/Mature Eggplant	0.99567	1
Ripe Pepper/Ripe Tomato	1.02156	1
Mature Eggplant/Ripe Tomato	0.73886	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04329	1
1-1-2/M82	1.19141	1
12-2/M82	1.12265	1
12-4/M82	0.83356	0.619
1-3/M82	N/A	N/A
2-1-1/M82	0.93664
2-1/M82	N/A	N/A
2-6/M82	0.88143
3-2/M82	1.06844
4-1-1/M82	N/A	N/A
4-1/M82	1.16096	0.853
4-3-2/M82	1.36873
4-3/M82	1.24591
5-3/M82	1.06123	1
6-2/M82	0.98967	1
6-3/M82	0.80727	0.668
7-1/M82	N/A	N/A
7-2/M82	0.92373	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.72661	0.321
IL2-6/WTpooled	1.19023	0.788
IL7-5/WTpooled	0.89506	1
IL7-3/WTpooled	0.85759	1
IL12-4/WTpooled	0.86279	0.581
IL1-4/WTpooled	1.36081	1
WT/WTpooled	1.05183	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	1.13461	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.60997	0.894
DC3000/delta hrp 6h	1.05316	1
DC3000/delta hrp 12h	1.05325	1
DC3000/delta hrp 24h	1.05839	0.553

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.49788
DC3000 delta B/DC3000 delta AB	1.00162	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.25541	1
Exp 36h	1.23957	0.409
Exp 60h	1.18122	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.07998	1
Var 0h	1.04272	0.421
Var 12h I row2-row1	0.99669	1
Var 12h NI row2-row1	1.11273	1
Var 36h I row2-row1	0.94858	1
Var 36h NI row2-row1	0.84836	0.61
Var 60h I row2-row1	0.76739	0.582
Var 60h NI row2-row1	0.91231	0.977
Time course 0hI-0hNI	1.0355	0.852
Time course 12hI-12hNI	1.31104	0.066
Time course 36hI-36hNI	1.4703	0.015
Time course 60hI-60hNI	1.54941	0.254

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)	0.98189	0.722
transgenic ySAMdc/azygous control (breaker)	1.11607	0.248
transgenic ySAMdc/azygous control (red)	1.14027	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94989	0.471

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.74276	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.71344	0.172
Manapal/WT (break)	0.89489	1
Manapal/WT (red)	1.2482	0.413