Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.4.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.17916	0.394
27DAP/17DAP	1.02795	0.916
39DAP/27DAP	0.82089	0.286
41DAP/39DAP	1.16453	0.478
42DAP/41DAP	1.04258	0.978
43DAP/42DAP	1.04492	1
47DAP/43DAP	1.03453	0.979
52DAP/47DAP	0.80753	0.488
57DAP/52DAP	1.09158	0.964

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05078	0.197
17DAP/reference	1.0095	0.508
27DAP/reference	1.02124	0.468
39DAP/reference	1.02781	0.335
41DAP/reference	0.989	0.814
42DAP/reference	0.97096	0.242
43DAP/reference	1.02576	0.425
47DAP/reference	1.0053	1
52DAP/reference	1.07422	0.158
57DAP/reference	1.02542	0.724

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13737	0.284
27DAP/17DAP	1.03966	0.909
39DAP/27DAP	1.05134	0.643
41DAP/39DAP	1.00044	1
42DAP/41DAP	0.9877	0.83
43DAP/42DAP	0.94307	0.482
47DAP/43DAP	1.00555	0.973
52DAP/47DAP	1.06564	0.766
57DAP/52DAP	1.04221	0.759
57DAP/7DAP	1.0941	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26434	0.078
17DAP/reference	0.88243	0.064
27DAP/reference	1.01846	0.974
39DAP/reference	1.11722	0.048
41DAP/reference	1.03609	0.791
42DAP/reference	1.11314	0.308
43DAP/reference	1.12522	0.408
47DAP/reference	1.12577	0.537
52DAP/reference	1.22982	0.029
57DAP/reference	1.21219	0.125

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07081	0.687
17DAP/reference	0.98742	0.673
27DAP/reference	1.03963	0.583
39DAP/reference	0.94922	0.339
41DAP/reference	0.91828	0.133
42DAP/reference	0.9123	0.169
43DAP/reference	0.98733	0.721
47DAP/reference	0.98366	0.5
52DAP/reference	1.04553	0.596
57DAP/reference	1.06561	0.409

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03221	0.918
17DAP/reference	0.95982	0.358
27DAP/reference	0.95483	0.174
39DAP/reference	1.11117	0.203
41DAP/reference	0.91507	0.331
42DAP/reference	1.04634	0.612
43DAP/reference	1.05597	0.625
47DAP/reference	0.90702	0.052
52DAP/reference	0.97971	0.732
57DAP/reference	1.09436	0.491

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97558	1
26DAP/20DAP	1.27251	0.168
34DAP/26DAP	0.9706	0.936
51DAP/34DAP	1.15204	0.115
52DAP/51DAP	0.99298	1
53DAP/52DAP	1.14613	0.565
55DAP/53DAP	0.85758	0.181
57DAP/55DAP	0.92866	0.748
62DAP/57DAP	1.11398	0.622
68DAP/62DAP	0.96451	0.834
68DAP/14DAP	1.01689	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.09141	0.306

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.8348	0.29
Mature Green Tomato/Ripe Tomato	1.56167
Immature Eggplant/Mature Eggplant	1.06399	0.462
Ripe Pepper/Ripe Tomato	1.58094	0.258
Mature Eggplant/Ripe Tomato	1.20415	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99828	1
1-1-2/M82	0.87043	0.754
12-2/M82	1.27919	0.61
12-4/M82	0.94309	1
1-3/M82	1.0631	1
2-1-1/M82	1.10202	1
2-1/M82	1.17603
2-6/M82	1.11796	0.385
3-2/M82	0.93505	0.752
4-1-1/M82	1.0204	1
4-1/M82	1.12962	0.444
4-3-2/M82	1.1256	0.241
4-3/M82	1.14135	0.268
5-3/M82	0.94286	1
6-2/M82	1.04522	1
6-3/M82	0.96973	1
7-1/M82	0.87788	0.803
7-2/M82	1.065	0.385
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	1.45578
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.65001
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	1.52576	0.957

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	0.82878	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02966	0.921
DC3000/delta hrp 6h	1.02393	1
DC3000/delta hrp 12h	0.88612	1
DC3000/delta hrp 24h	1.15081	0.453

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.17014	0.05
DC3000 delta B/DC3000 delta AB	1.14918	0.225

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99517	1
Exp 36h	1.22573	1
Exp 60h	1.17291	1

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.97214	1
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.24275	0.212
transgenic ySAMdc/azygous control (breaker)	1.06595	1
transgenic ySAMdc/azygous control (red)	0.95872	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99538	0.712

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.81956	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.93424	1
Manapal/WT (break)	1.46369	0.13
Manapal/WT (red)	1.29468	0.222