Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.5.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.6992	0.125
27DAP/17DAP	0.67625	0.191
39DAP/27DAP	1.20763	0.985
41DAP/39DAP	0.69777	0.141
42DAP/41DAP	0.79621	0.259
43DAP/42DAP	0.92365	0.867
47DAP/43DAP	0.92761	0.701
52DAP/47DAP	1.1535	0.804
57DAP/52DAP	1.31994	0.948

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17374	0.366
17DAP/reference	0.87017	0.097
27DAP/reference	0.94441	0.406
39DAP/reference	1.03623	0.76
41DAP/reference	0.93689	0.434
42DAP/reference	0.89656	0.011
43DAP/reference	1.00891	1
47DAP/reference	0.85082	0.014
52DAP/reference	0.92288	0.275
57DAP/reference	0.96061	0.324

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.64768	0.093
27DAP/17DAP	0.71518	0.164
39DAP/27DAP	1.05377	0.77
41DAP/39DAP	0.79023	0.047
42DAP/41DAP	0.89609	0.391
43DAP/42DAP	0.92484	0.538
47DAP/43DAP	0.96236	0.861
52DAP/47DAP	1.01896	0.919
57DAP/52DAP	0.67559	0.132
57DAP/7DAP	0.36651	0.186

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87407	0.246
17DAP/reference	1.00312	1
27DAP/reference	0.9128	0.135
39DAP/reference	0.82353	0.015
41DAP/reference	0.84635	0.098
42DAP/reference	0.92694	0.2
43DAP/reference	0.9261	0.241
47DAP/reference	1.01019	1
52DAP/reference	0.76029	0.053
57DAP/reference	0.87208	0.114

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1867	0.279
17DAP/reference	0.83656	0.095
27DAP/reference	1.01466	0.711
39DAP/reference	0.82677	0.097
41DAP/reference	0.97993	0.481
42DAP/reference	0.95389	0.392
43DAP/reference	1.03857	0.748
47DAP/reference	1.0216	0.89
52DAP/reference	0.78313	0.006
57DAP/reference	0.78955	0.058

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92413	0.214
17DAP/reference	1.04314	0.876
27DAP/reference	0.91377	0.206
39DAP/reference	0.95264	0.464
41DAP/reference	1.16944	1
42DAP/reference	0.96141	0.552
43DAP/reference	0.71617	0.026
47DAP/reference	0.78135	0.057
52DAP/reference	1.08435	0.718
57DAP/reference	0.80593	0.064

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01788	1
26DAP/20DAP	1.19003	0.718
34DAP/26DAP	1.05255	1
51DAP/34DAP	0.79521	0.41
52DAP/51DAP	0.95684	1
53DAP/52DAP	0.86881	0.514
55DAP/53DAP	0.96333	0.784
57DAP/55DAP	0.95283	0.804
62DAP/57DAP	0.7681	0.016
68DAP/62DAP	1.49503	0.653
68DAP/14DAP	1.20626	0.453

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.41569	0.347

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.04375	0.024
Immature Eggplant/Mature Eggplant	14.8984	0.05
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	10.5748

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.42863
1-1-2/M82	0.97793	1
12-2/M82	N/A	N/A
12-4/M82	1.19866
1-3/M82	0.46192
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.02069
3-2/M82	0.89843	1
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.02873
4-3/M82	N/A	N/A
5-3/M82	1.01395
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.94928	1
7-2/M82	1.40053
9-3-2/M82	0.84635

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	1.38599
IL7-3/WTpooled	0.96761
IL12-4/WTpooled	0.81737	0.484
IL1-4/WTpooled	1.13668	0.426
WT/WTpooled	0.99188	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	0.96135	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99112	1
DC3000/delta hrp 6h	1.13955	1
DC3000/delta hrp 12h	0.71494	1
DC3000/delta hrp 24h	4.53696	0.018

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.22427	0.25
DC3000 delta B/DC3000 delta AB	0.94609	0.619

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.91202	1
Exp 36h	1.55556	0.693
Exp 60h	1.12468	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03492	1
Var 0h	1.04937	1
Var 12h I row2-row1	1.17623	0.443
Var 12h NI row2-row1	1.05437	0.649
Var 36h I row2-row1	0.77356	1
Var 36h NI row2-row1	1.11028	1
Var 60h I row2-row1	0.78789	0.439
Var 60h NI row2-row1	0.85833	0.977
Time course 0hI-0hNI	1.12394	0.574
Time course 12hI-12hNI	1.19299	0.042
Time course 36hI-36hNI	1.1785	0.114
Time course 60hI-60hNI	1.7647	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)	0.80422	0.409
transgenic ySAMdc/azygous control (breaker)	0.96832	1
transgenic ySAMdc/azygous control (red)	1.68184	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97876	0.286

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.26317	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.55548	1
Manapal/WT (break)	0.67097	1
Manapal/WT (red)	N/A	N/A