Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.17.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1262	0.697
27DAP/17DAP	1.10479	0.857
39DAP/27DAP	1.27594	0.35
41DAP/39DAP	1.02058	0.825
42DAP/41DAP	1.38611	0.196
43DAP/42DAP	1.04295	1
47DAP/43DAP	1.65761	0.332
52DAP/47DAP	1.07362	0.957
57DAP/52DAP	0.84723	0.622

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24794	0.071
17DAP/reference	1.13215	0.27
27DAP/reference	1.09915	0.847
39DAP/reference	1.03773	0.771
41DAP/reference	1.18524	0.032
42DAP/reference	1.13558	0.043
43DAP/reference	0.81318	0.042
47DAP/reference	1.26687	0.02
52DAP/reference	1.36554	0.029
57DAP/reference	1.16291	0.159

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.25941	0.036
27DAP/17DAP	0.81971	0.137
39DAP/27DAP	1.11921	0.343
41DAP/39DAP	0.82401	0.147
42DAP/41DAP	0.87523	0.247
43DAP/42DAP	1.1112	0.147
47DAP/43DAP	1.09492	0.765
52DAP/47DAP	1.42155	0.16
57DAP/52DAP	1.30389	0.127
57DAP/7DAP	1.73042	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76226	0.091
17DAP/reference	0.83079	0.044
27DAP/reference	0.90237	0.2
39DAP/reference	0.84971	0.095
41DAP/reference	0.81798	0.16
42DAP/reference	1.06554	1
43DAP/reference	0.70111	0.032
47DAP/reference	1.04893	1
52DAP/reference	0.77306	0.066
57DAP/reference	0.72526	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14964	0.47
17DAP/reference	1.15197	0.385
27DAP/reference	1.21928	0.082
39DAP/reference	1.30337	0.146
41DAP/reference	1.16779	0.301
42DAP/reference	1.28243	0.061
43DAP/reference	1.11767	0.489
47DAP/reference	1.27887	0.029
52DAP/reference	1.41442	0.629
57DAP/reference	1.22492	0.119

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00819	1
17DAP/reference	0.99071	0.751
27DAP/reference	1.18715	0.487
39DAP/reference	0.91163	0.147
41DAP/reference	0.95328	0.512
42DAP/reference	1.02816	1
43DAP/reference	1.07147	1
47DAP/reference	1.53198	0.073
52DAP/reference	0.82799	0.385
57DAP/reference	1.17969	0.971

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96499	1
26DAP/20DAP	1.0033	1
34DAP/26DAP	1.629	0.542
51DAP/34DAP	1.09942	0.719
52DAP/51DAP	1.2545	0.556
53DAP/52DAP	0.84396	0.445
55DAP/53DAP	1.10954	0.494
57DAP/55DAP	1.10926	1
62DAP/57DAP	1.07503	1
68DAP/62DAP	0.96396	0.885
68DAP/14DAP	1.11836	0.578

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.83404	0.099

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.56371	0.038
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	2.07897	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.39156
12-2/M82	N/A	N/A
12-4/M82	1.11351	1
1-3/M82	0.7407
2-1-1/M82	0.66514
2-1/M82	N/A	N/A
2-6/M82	0.69384
3-2/M82	0.89969
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.62324
4-3/M82	0.83392	0.72
5-3/M82	1.17799	0.572
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.27608
7-2/M82	0.62405
9-3-2/M82	0.98128	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.82937
IL7-5/WTpooled	0.95495
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.18184	0.695
IL1-4/WTpooled	0.90564	1
WT/WTpooled	1.05766	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	1.09983	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02905	1
DC3000/delta hrp 6h	2.61693
DC3000/delta hrp 12h	0.93906
DC3000/delta hrp 24h	1.05981	0.62

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.39802	0.16
DC3000 delta B/DC3000 delta AB	1.10441	0.558

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
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	1.024	1
Var 0h	0.97365	1
Var 12h I row2-row1	0.95322	0.77
Var 12h NI row2-row1	0.98464	1
Var 36h I row2-row1	0.68971	0.805
Var 36h NI row2-row1	1.5203	1
Var 60h I row2-row1	0.8688	0.832
Var 60h NI row2-row1	0.94813	0.932
Time course 0hI-0hNI	1.05602	0.833
Time course 12hI-12hNI	0.86154	0.046
Time course 36hI-36hNI	0.64481	0.023
Time course 60hI-60hNI	0.9379	0.161

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	1.06506	1
transgenic ySAMdc/azygous control (red)	0.96349	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.56877	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.18525	0.381
Manapal/WT (red)	1.24057	0.222