Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.18.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.19487	0.512
27DAP/17DAP	0.91117	0.766
39DAP/27DAP	1.50684	0.426
41DAP/39DAP	0.92233	0.666
42DAP/41DAP	1.01306	1
43DAP/42DAP	1.08637	1
47DAP/43DAP	1.0017	0.966
52DAP/47DAP	0.95857	0.842
57DAP/52DAP	1.17048	0.941

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02413	0.9
17DAP/reference	1.03039	0.74
27DAP/reference	1.00008	0.904
39DAP/reference	0.91441	0.164
41DAP/reference	1.04138	0.365
42DAP/reference	1.11299	0.033
43DAP/reference	1.03182	0.758
47DAP/reference	1.07552	0.215
52DAP/reference	1.08237	0.205
57DAP/reference	0.84205	0.024

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25937	0.284
27DAP/17DAP	1.11285	0.677
39DAP/27DAP	1.05234	1
41DAP/39DAP	1.10996	0.735
42DAP/41DAP	1.07922	0.947
43DAP/42DAP	0.90731	0.172
47DAP/43DAP	1.00128	0.961
52DAP/47DAP	1.11802	0.749
57DAP/52DAP	1.1688	0.335
57DAP/7DAP	1.06625	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11194	0.409
17DAP/reference	0.90611	0.167
27DAP/reference	0.96702	0.402
39DAP/reference	0.95616	0.411
41DAP/reference	0.9608	0.394
42DAP/reference	1.05417	1
43DAP/reference	0.94765	0.241
47DAP/reference	1.21594	0.139
52DAP/reference	0.93158	0.304
57DAP/reference	0.93921	0.28

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93453	0.475
17DAP/reference	1.1808	0.113
27DAP/reference	0.95571	0.393
39DAP/reference	0.98737	0.586
41DAP/reference	0.89508	0.169
42DAP/reference	0.88037	0.055
43DAP/reference	0.87744	0.162
47DAP/reference	0.87307	0.047
52DAP/reference	0.98397	0.5
57DAP/reference	1.09845	0.131

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88596	0.127
17DAP/reference	0.97383	0.647
27DAP/reference	0.93414	0.147
39DAP/reference	0.88267	0.033
41DAP/reference	0.80607	0.058
42DAP/reference	1.01696	1
43DAP/reference	1.00141	0.894
47DAP/reference	0.98463	0.525
52DAP/reference	1.15357	0.153
57DAP/reference	0.90519	0.187

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.19853	0.966
26DAP/20DAP	1.77207	0.259
34DAP/26DAP	0.89688	0.795
51DAP/34DAP	0.66424	0.08
52DAP/51DAP	0.82642	1
53DAP/52DAP	1.27263	0.179
55DAP/53DAP	0.79262	0.028
57DAP/55DAP	0.93234	0.652
62DAP/57DAP	0.73669	0.004
68DAP/62DAP	1.17263	0.831
68DAP/14DAP	0.89491	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.11655	0.821

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.9747	0.765
Mature Green Tomato/Ripe Tomato	0.95098	0.569
Immature Eggplant/Mature Eggplant	1.22336	0.069
Ripe Pepper/Ripe Tomato	0.74629	0.224
Mature Eggplant/Ripe Tomato	0.80994	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.17872	0.877
1-1-2/M82	1.18554	1
12-2/M82	0.48108
12-4/M82	1.07116	1
1-3/M82	1.71394
2-1-1/M82	0.93869
2-1/M82	N/A	N/A
2-6/M82	1.06615	1
3-2/M82	1.32568
4-1-1/M82	1.0785	1
4-1/M82	1.91433
4-3-2/M82	1.12013	1
4-3/M82	1.40319	0.268
5-3/M82	1.17346	0.496
6-2/M82	1.44468
6-3/M82	0.55914	0.423
7-1/M82	0.93185	1
7-2/M82	1.12087
9-3-2/M82	1.37154	1

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	1.32077	1
IL12-4/WTpooled	0.99397	1
IL1-4/WTpooled	0.80011
WT/WTpooled	0.84537

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	1.01942	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06043	0.914
DC3000/delta hrp 6h	1.04475	1
DC3000/delta hrp 12h	1.01248	1
DC3000/delta hrp 24h	1.01326	0.84

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.1339	0.063
DC3000 delta B/DC3000 delta AB	1.10338	0.377

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.07392	1
Exp 36h	1.13103	1
Exp 60h	1.01182	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02818	1
Var 0h	0.44839	0.933
Var 12h I row2-row1	0.98408	0.948
Var 12h NI row2-row1	1.20183	0.649
Var 36h I row2-row1	0.9521	1
Var 36h NI row2-row1	1.10195	1
Var 60h I row2-row1	0.71736	0.287
Var 60h NI row2-row1	0.86217	0.866
Time course 0hI-0hNI	1.00292	1
Time course 12hI-12hNI	1.00478	1
Time course 36hI-36hNI	1.27356	0.017
Time course 60hI-60hNI	1.8844	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)	0.96572	0.391
transgenic ySAMdc/azygous control (breaker)	0.78868	0.173
transgenic ySAMdc/azygous control (red)	0.99797	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.09234	0.155

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.91444	0.241

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.98374	1
Manapal/WT (break)	0.9087	1
Manapal/WT (red)	1.02032	1