Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.7.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98873	0.83
27DAP/17DAP	0.9934	1
39DAP/27DAP	1.16654	0.873
41DAP/39DAP	0.84696	0.433
42DAP/41DAP	1.51036	0.954
43DAP/42DAP	0.93405	0.71
47DAP/43DAP	0.90122	0.667
52DAP/47DAP	1.10001	0.969
57DAP/52DAP	1.09296	0.946

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93758	0.352
17DAP/reference	1.00865	0.904
27DAP/reference	0.94934	0.497
39DAP/reference	0.92854	0.35
41DAP/reference	0.93201	0.049
42DAP/reference	0.87731	0.062
43DAP/reference	0.88109	0.042
47DAP/reference	0.92833	0.174
52DAP/reference	1.09157	0.912
57DAP/reference	1.02338	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01466	0.871
27DAP/17DAP	1.11296	0.73
39DAP/27DAP	0.96202	0.754
41DAP/39DAP	1.01933	0.959
42DAP/41DAP	1.2236	0.615
43DAP/42DAP	0.86216	0.127
47DAP/43DAP	1.04713	0.865
52DAP/47DAP	0.92622	0.671
57DAP/52DAP	0.98505	0.782
57DAP/7DAP	1.11132	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00795	1
17DAP/reference	0.92595	0.192
27DAP/reference	0.97109	0.462
39DAP/reference	1.13643	0.066
41DAP/reference	0.93841	0.284
42DAP/reference	1.17622	0.059
43DAP/reference	0.98954	0.555
47DAP/reference	1.02815	0.965
52DAP/reference	0.96674	0.477
57DAP/reference	1.04384	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85683	0.277
17DAP/reference	0.90205	0.054
27DAP/reference	0.88901	0.104
39DAP/reference	0.76929	0.119
41DAP/reference	0.96201	0.291
42DAP/reference	0.87969	0.321
43DAP/reference	0.90141	0.224
47DAP/reference	0.84778	0.154
52DAP/reference	0.83781	0.086
57DAP/reference	1.05427	0.957

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89421	0.214
17DAP/reference	1.04183	0.833
27DAP/reference	0.86047	0.069
39DAP/reference	1.04954	0.563
41DAP/reference	1.2059	0.343
42DAP/reference	1.03344	1
43DAP/reference	1.01769	0.973
47DAP/reference	0.82067	0.145
52DAP/reference	0.93565	0.538
57DAP/reference	0.91773	0.242

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.85404	1
26DAP/20DAP	1.83934	0.281
34DAP/26DAP	0.93676	0.841
51DAP/34DAP	1.34611	0.118
52DAP/51DAP	1.14339	0.295
53DAP/52DAP	0.89759	0.426
55DAP/53DAP	0.99794	0.894
57DAP/55DAP	1.06605	0.997
62DAP/57DAP	1.44269	0.04
68DAP/62DAP	0.95266	0.834
68DAP/14DAP	1.19638

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.4533	0.047

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.47265	0.093
Mature Green Tomato/Ripe Tomato	1.50998	0.017
Immature Eggplant/Mature Eggplant	1.2891	0.054
Ripe Pepper/Ripe Tomato	2.30239	1
Mature Eggplant/Ripe Tomato	0.97705	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9074	0.736
1-1-2/M82	1.04505	1
12-2/M82	0.81041	0.535
12-4/M82	1.12226	1
1-3/M82	1.70173
2-1-1/M82	1.07514	0.764
2-1/M82	0.53243
2-6/M82	1.21788	0.695
3-2/M82	1.47393
4-1-1/M82	0.95555	1
4-1/M82	0.84665
4-3-2/M82	1.51314	0.284
4-3/M82	1.45429	0.268
5-3/M82	0.97833	1
6-2/M82	1.0643	1
6-3/M82	0.90115	1
7-1/M82	1.09105	0.992
7-2/M82	1.30854	0.324
9-3-2/M82	1.14283	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.23957	0.277
IL2-6/WTpooled	0.92661	0.473
IL7-5/WTpooled	1.05819	0.792
IL7-3/WTpooled	0.97653	1
IL12-4/WTpooled	1.12071	0.466
IL1-4/WTpooled	1.03001	1
WT/WTpooled	1.04645	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	1.12065	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01546	1
DC3000/delta hrp 6h	1.05397	1
DC3000/delta hrp 12h	0.91559	1
DC3000/delta hrp 24h	0.86465	0.257

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.27419	0.043
DC3000 delta B/DC3000 delta AB	1.39575	0.133

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.12458	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	0.98358	1
Var 0h	0.92735	1
Var 12h I row2-row1	1.11968	0.654
Var 12h NI row2-row1	1.18743	0.34
Var 36h I row2-row1	1.09762	1
Var 36h NI row2-row1	0.87067	0.478
Var 60h I row2-row1	0.71018	0.285
Var 60h NI row2-row1	0.9811	1
Time course 0hI-0hNI	0.89256	0.247
Time course 12hI-12hNI	1.11933	0.392
Time course 36hI-36hNI	1.31583	0.006
Time course 60hI-60hNI	1.7039	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)	1.02192	0.798
transgenic ySAMdc/azygous control (breaker)	1.60465	0.165
transgenic ySAMdc/azygous control (red)	1.23543	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99467	0.806

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.83133	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.00672	1
Manapal/WT (break)	1.05871	1
Manapal/WT (red)	1.3673	0.164