Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.15.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1272	0.681
27DAP/17DAP	1.01537	1
39DAP/27DAP	0.96773	0.719
41DAP/39DAP	0.88854	0.524
42DAP/41DAP	0.98749	1
43DAP/42DAP	1.16032	0.772
47DAP/43DAP	1.40143	0.349
52DAP/47DAP	1.2565	0.973
57DAP/52DAP	0.89121	0.845

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82004	0.077
17DAP/reference	0.78638	0.097
27DAP/reference	0.81121	0.032
39DAP/reference	0.8569	0.188
41DAP/reference	0.69146	0.049
42DAP/reference	0.79254	0.009
43DAP/reference	1.02026	1
47DAP/reference	0.88029	0.106
52DAP/reference	1.10885	0.286
57DAP/reference	1.10503	0.366

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.36384	0.036
27DAP/17DAP	0.78817	0.172
39DAP/27DAP	0.90482	0.462
41DAP/39DAP	1.03352	1
42DAP/41DAP	0.95292	0.687
43DAP/42DAP	1.03976	0.585
47DAP/43DAP	0.94564	0.696
52DAP/47DAP	1.10623	0.669
57DAP/52DAP	1.03181	0.941
57DAP/7DAP	0.95987	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9193	0.183
17DAP/reference	0.78548	0.021
27DAP/reference	1.03084	0.371
39DAP/reference	0.86738	0.043
41DAP/reference	0.8028	0.028
42DAP/reference	0.92379	0.169
43DAP/reference	0.86379	0.121
47DAP/reference	0.92821	0.293
52DAP/reference	0.94175	0.304
57DAP/reference	0.84914	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.66161	0.016
17DAP/reference	0.58976	0.006
27DAP/reference	0.93807	0.304
39DAP/reference	1.04765	1
41DAP/reference	1.13528	0.48
42DAP/reference	0.94644	0.189
43DAP/reference	0.73646	0.09
47DAP/reference	0.71411	0.01
52DAP/reference	0.97029	0.469
57DAP/reference	0.71231	0.035

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86721	0.087
17DAP/reference	0.88004	0.286
27DAP/reference	0.8851	0.05
39DAP/reference	0.92307	0.076
41DAP/reference	0.96742	0.56
42DAP/reference	1.2098	0.408
43DAP/reference	0.89517	0.256
47DAP/reference	0.87652	0.259
52DAP/reference	0.7346	0.053
57DAP/reference	1.39768	0.129

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0133	1
26DAP/20DAP	1.1558	0.587
34DAP/26DAP	1.19355	1
51DAP/34DAP	1.1259	0.627
52DAP/51DAP	1.19987	0.404
53DAP/52DAP	0.90841	0.677
55DAP/53DAP	1.14719	0.748
57DAP/55DAP	0.72834	0.173
62DAP/57DAP	1.59662	0.622
68DAP/62DAP	3.6341	0.028
68DAP/14DAP	6.23995	0.017

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.20587	0.439

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.58667	0.196
Mature Green Tomato/Ripe Tomato	1.18372	0.577
Immature Eggplant/Mature Eggplant	1.00334	1
Ripe Pepper/Ripe Tomato	0.55612	0.224
Mature Eggplant/Ripe Tomato	0.38566	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.17691	0.742
1-1-2/M82	0.97387	1
12-2/M82	0.97345	0.955
12-4/M82	1.05133	1
1-3/M82	0.77931
2-1-1/M82	0.8113	0.784
2-1/M82	1.05126
2-6/M82	0.93937	0.501
3-2/M82	0.97838
4-1-1/M82	1.02428	1
4-1/M82	1.10774	1
4-3-2/M82	1.15062	1
4-3/M82	1.0502	1
5-3/M82	1.02015	1
6-2/M82	0.5703	0.481
6-3/M82	1.07197	1
7-1/M82	0.90477
7-2/M82	N/A	N/A
9-3-2/M82	1.33446	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.84038	0.321
IL2-6/WTpooled	1.12154	0.419
IL7-5/WTpooled	0.84962	1
IL7-3/WTpooled	1.03634	1
IL12-4/WTpooled	0.91503	1
IL1-4/WTpooled	0.91827	0.476
WT/WTpooled	1.17996	0.911

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	0.77956	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.058	0.921
DC3000/delta hrp 6h	0.95311	0.95
DC3000/delta hrp 12h	1.02452	1
DC3000/delta hrp 24h	0.96579	0.794

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.13238	0.183
DC3000 delta B/DC3000 delta AB	1.06955	0.539

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.91254	1
Exp 36h	1.10064	1
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	0.92592	1
Var 0h	0.81674	0.936
Var 12h I row2-row1	1.1197	0.692
Var 12h NI row2-row1	1.07655	0.34
Var 36h I row2-row1	0.97137	1
Var 36h NI row2-row1	0.95458	0.645
Var 60h I row2-row1	0.93122	0.832
Var 60h NI row2-row1	0.92299	0.977
Time course 0hI-0hNI	1.03584	0.833
Time course 12hI-12hNI	1.04409	0.762
Time course 36hI-36hNI	0.97513	0.524
Time course 60hI-60hNI	0.62374	0.006

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)	1.01891	0.541
transgenic ySAMdc/azygous control (breaker)	0.70422	0.137
transgenic ySAMdc/azygous control (red)	0.91511	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9743	0.27

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.39902	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.62561	0.172
Manapal/WT (break)	0.85214	1
Manapal/WT (red)	N/A	N/A