Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.15.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92903	0.617
27DAP/17DAP	0.87019	0.749
39DAP/27DAP	1.1026	1
41DAP/39DAP	1.45354	0.292
42DAP/41DAP	0.83263	0.774
43DAP/42DAP	1.0326	0.934
47DAP/43DAP	1.1615	0.95
52DAP/47DAP	0.80611	0.551
57DAP/52DAP	0.80142	0.765

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79419	0.048
17DAP/reference	0.81991	0.008
27DAP/reference	1.00902	0.867
39DAP/reference	0.89933	0.037
41DAP/reference	0.75105	0.008
42DAP/reference	0.85275	0.003
43DAP/reference	0.92992	0.247
47DAP/reference	0.97206	0.366
52DAP/reference	1.0741	0.524
57DAP/reference	1.2918	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81731	0.201
27DAP/17DAP	1.06702	0.945
39DAP/27DAP	1.27628	0.231
41DAP/39DAP	1.29118	0.59
42DAP/41DAP	0.77146	0.145
43DAP/42DAP	0.9143	0.618
47DAP/43DAP	2.55329	0.817
52DAP/47DAP	1.12795	0.785
57DAP/52DAP	0.82215	0.324
57DAP/7DAP	0.58736	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8844	0.108
17DAP/reference	1.04866	0.437
27DAP/reference	1.05914	0.371
39DAP/reference	1.11951	1
41DAP/reference	0.98299	0.489
42DAP/reference	1.14506	0.233
43DAP/reference	1.11099	0.256
47DAP/reference	0.93363	0.293
52DAP/reference	0.87827	0.179
57DAP/reference	0.87829	0.137

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80388	0.015
17DAP/reference	0.79182	0.008
27DAP/reference	0.85664	0.076
39DAP/reference	0.97647	0.497
41DAP/reference	0.9752	0.441
42DAP/reference	0.85131	0.02
43DAP/reference	0.82082	0.064
47DAP/reference	0.91512	0.058
52DAP/reference	0.9363	0.093
57DAP/reference	0.84907	0.073

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04329	1
17DAP/reference	0.92275	0.292
27DAP/reference	0.88115	0.147
39DAP/reference	1.02582	0.813
41DAP/reference	0.96136	0.417
42DAP/reference	1.01637	0.923
43DAP/reference	0.87282	0.057
47DAP/reference	0.98869	0.574
52DAP/reference	1.33802	0.252
57DAP/reference	1.2613	0.077

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08628	0.966
26DAP/20DAP	1.21585	0.931
34DAP/26DAP	1.0904	1
51DAP/34DAP	0.74528	0.504
52DAP/51DAP	0.85731	1
53DAP/52DAP	0.98944	0.99
55DAP/53DAP	0.90552	0.686
57DAP/55DAP	1.16744	0.881
62DAP/57DAP	1.06525	1
68DAP/62DAP	1.10847	0.869
68DAP/14DAP	1.25864	0.615

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.77531	0.155

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.25566
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.25281
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

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	N/A	N/A
IL7-3/WTpooled	1.36847
IL12-4/WTpooled	1.1166
IL1-4/WTpooled	1.23789	1
WT/WTpooled	0.98559	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02686	0.921
DC3000/delta hrp 6h	1.51727	1
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.61481

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06263	1
Exp 36h	N/A	N/A
Exp 60h	0.92986	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95472	1
Var 0h	1.13633	0.98
Var 12h I row2-row1	0.83593	0.338
Var 12h NI row2-row1	0.98612	1
Var 36h I row2-row1	0.87785	0.438
Var 36h NI row2-row1	0.89742	0.743
Var 60h I row2-row1	1.40738	0.523
Var 60h NI row2-row1	1.00387	0.281
Time course 0hI-0hNI	0.95416	0.751
Time course 12hI-12hNI	0.86837	0.101
Time course 36hI-36hNI	0.66832	0.023
Time course 60hI-60hNI	0.27091	0.011

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)	0.97488	0.789
transgenic ySAMdc/azygous control (breaker)	0.94564	1
transgenic ySAMdc/azygous control (red)	1.08175	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98252	0.231

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.10576	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.05804	0.307
Manapal/WT (break)	0.62846	0.299
Manapal/WT (red)	N/A	N/A