Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-6.4.11.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91356	0.413
27DAP/17DAP	1.03529	0.902
39DAP/27DAP	0.91031	0.544
41DAP/39DAP	1.15782	0.63
42DAP/41DAP	0.92102	1
43DAP/42DAP	0.96263	0.867
47DAP/43DAP	0.84883	0.496
52DAP/47DAP	1.24092	0.514
57DAP/52DAP	1.06815	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9566	0.422
17DAP/reference	1.02563	0.412
27DAP/reference	0.99179	0.779
39DAP/reference	0.97422	0.68
41DAP/reference	0.92582	0.434
42DAP/reference	0.95456	0.028
43DAP/reference	0.98851	0.785
47DAP/reference	0.9934	0.636
52DAP/reference	0.9101	0.416
57DAP/reference	0.97991	0.58

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98711	0.763
27DAP/17DAP	1.02779	0.905
39DAP/27DAP	1.107	0.436
41DAP/39DAP	0.92423	0.142
42DAP/41DAP	1.01564	0.927
43DAP/42DAP	1.01304	0.664
47DAP/43DAP	0.99929	1
52DAP/47DAP	0.96622	0.801
57DAP/52DAP	1.02494	0.856
57DAP/7DAP	1.06843	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95004	0.157
17DAP/reference	0.87732	0.011
27DAP/reference	0.85341	0.01
39DAP/reference	0.92958	0.023
41DAP/reference	0.9576	0.16
42DAP/reference	0.89404	0.028
43DAP/reference	0.87716	0.013
47DAP/reference	0.87478	0.101
52DAP/reference	0.87079	0.014
57DAP/reference	0.89806	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89954	0.09
17DAP/reference	0.89782	0.049
27DAP/reference	1.11741	0.917
39DAP/reference	0.9351	0.173
41DAP/reference	0.86549	0.105
42DAP/reference	0.86032	0.108
43DAP/reference	0.9184	0.121
47DAP/reference	0.97894	0.359
52DAP/reference	0.8974	0.02
57DAP/reference	0.95494	0.338

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84749	0.044
17DAP/reference	0.90958	0.21
27DAP/reference	0.92227	0.047
39DAP/reference	0.87494	0.011
41DAP/reference	0.89361	0.028
42DAP/reference	0.83278	0.019
43DAP/reference	0.86454	0.031
47DAP/reference	0.9343	0.191
52DAP/reference	0.91572	0.167
57DAP/reference	0.84879	0.033

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99018	1
26DAP/20DAP	1.01071	1
34DAP/26DAP	0.98994	1
51DAP/34DAP	1.01566	0.962
52DAP/51DAP	1.00482	0.939
53DAP/52DAP	1.02692	0.797
55DAP/53DAP	1.00708	0.982
57DAP/55DAP	1.04323	0.969
62DAP/57DAP	0.94847	0.466
68DAP/62DAP	1.05364	0.936
68DAP/14DAP	1.08789	0.714

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.09067	0.172

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.83546	0.418
Mature Green Tomato/Ripe Tomato	1.1359	0.948
Immature Eggplant/Mature Eggplant	1.32216	0.051
Ripe Pepper/Ripe Tomato	0.81206	1
Mature Eggplant/Ripe Tomato	1.01029	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.90441	0.841
1-1-2/M82	1.00316	1
12-2/M82	0.96726	0.955
12-4/M82	0.96107	1
1-3/M82	0.95008	0.441
2-1-1/M82	1.05453	0.764
2-1/M82	1.12966	1
2-6/M82	0.98912	1
3-2/M82	0.98062	1
4-1-1/M82	1.02375	1
4-1/M82	0.95293	1
4-3-2/M82	0.88536	0.698
4-3/M82	1.03025	1
5-3/M82	1.01712	1
6-2/M82	1.01323	1
6-3/M82	0.98055	1
7-1/M82	0.99246	1
7-2/M82	0.97938	0.599
9-3-2/M82	0.84775	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.87108	0.321
IL2-6/WTpooled	0.93408	1
IL7-5/WTpooled	1.09234	1
IL7-3/WTpooled	1.0049	1
IL12-4/WTpooled	1.1033	0.839
IL1-4/WTpooled	0.95547	1
WT/WTpooled	0.97974	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	1.12126	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00578	1
DC3000/delta hrp 6h	1.08527	1
DC3000/delta hrp 12h	1.1212	1
DC3000/delta hrp 24h	1.05171	0.553

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.14957	0.11
DC3000 delta B/DC3000 delta AB	1.09891	0.335

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92718	0.328
Exp 36h	1.25303	1
Exp 60h	1.03552	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95603	1
Var 0h	1.2138	0.782
Var 12h I row2-row1	1.11708	0.348
Var 12h NI row2-row1	1.02736	1
Var 36h I row2-row1	1.20255	0.742
Var 36h NI row2-row1	0.94471	0.706
Var 60h I row2-row1	0.97058	0.285
Var 60h NI row2-row1	1.0245	1
Time course 0hI-0hNI	1.03659	0.486
Time course 12hI-12hNI	0.99103	0.968
Time course 36hI-36hNI	0.94059	0.426
Time course 60hI-60hNI	1.14069	0.009

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)	0.99708	0.931
transgenic ySAMdc/azygous control (breaker)	1.18821	0.178
transgenic ySAMdc/azygous control (red)	0.98779	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9836	0.248

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.09065	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.98051	1
Manapal/WT (break)	0.79481	0.299
Manapal/WT (red)	0.84189	0.181