Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.13.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04087	1
27DAP/17DAP	0.96573	0.869
39DAP/27DAP	1.487	0.323
41DAP/39DAP	1.57809	0.203
42DAP/41DAP	0.89175	1
43DAP/42DAP	0.84199	0.7
47DAP/43DAP	0.94283	0.609
52DAP/47DAP	2.10381	0.562
57DAP/52DAP	0.80836	0.759

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9523	0.284
17DAP/reference	0.9965	0.904
27DAP/reference	0.91326	0.095
39DAP/reference	0.98691	0.797
41DAP/reference	1.01588	0.855
42DAP/reference	0.96825	0.151
43DAP/reference	1.07798	0.34
47DAP/reference	1.02756	0.264
52DAP/reference	1.00728	1
57DAP/reference	1.04529	0.682

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9053	0.402
27DAP/17DAP	1.01268	1
39DAP/27DAP	1.09411	0.422
41DAP/39DAP	0.87376	0.434
42DAP/41DAP	1.08389	0.861
43DAP/42DAP	1.054	0.554
47DAP/43DAP	1.15373	0.166
52DAP/47DAP	0.96389	0.839
57DAP/52DAP	0.9383	0.608
57DAP/7DAP	0.92853	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97853	0.361
17DAP/reference	0.99042	0.338
27DAP/reference	1.03311	0.16
39DAP/reference	1.0179	0.511
41DAP/reference	1.02255	0.701
42DAP/reference	0.99868	0.791
43DAP/reference	1.03958	0.148
47DAP/reference	0.97463	0.671
52DAP/reference	1.02696	0.401
57DAP/reference	1.00882	0.438

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10582	0.201
17DAP/reference	1.0533	0.496
27DAP/reference	1.11153	1
39DAP/reference	0.88408	0.062
41DAP/reference	0.92042	0.299
42DAP/reference	1.00164	0.723
43DAP/reference	1.27707	0.211
47DAP/reference	1.08089	0.153
52DAP/reference	0.92795	0.171
57DAP/reference	1.165	0.177

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0304	0.518
17DAP/reference	1.00798	0.988
27DAP/reference	1.02448	0.672
39DAP/reference	1.00259	1
41DAP/reference	0.9887	0.682
42DAP/reference	0.93338	0.172
43DAP/reference	0.96217	0.267
47DAP/reference	0.96512	0.409
52DAP/reference	0.95044	0.36
57DAP/reference	0.90924	0.262

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97774	1
26DAP/20DAP	0.83318	0.317
34DAP/26DAP	1.0681	0.819
51DAP/34DAP	0.93469	0.667
52DAP/51DAP	1.11501	0.335
53DAP/52DAP	1.10349	0.356
55DAP/53DAP	0.92727	0.43
57DAP/55DAP	1.11117	0.584
62DAP/57DAP	0.9856	0.994
68DAP/62DAP	0.85533	0.609
68DAP/14DAP	0.73787	0.086

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.12975	0.172

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.38274	0.119
Immature Eggplant/Mature Eggplant	78.1771	0.05
Ripe Pepper/Ripe Tomato	0.59621	0.224
Mature Eggplant/Ripe Tomato	0.49593	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03595	0.877
1-1-2/M82	0.93202	1
12-2/M82	1.13503	0.519
12-4/M82	1.03406	1
1-3/M82	1.04552	1
2-1-1/M82	1.58839	0.439
2-1/M82	3.29319	0.234
2-6/M82	0.98203	1
3-2/M82	0.92533
4-1-1/M82	0.96424	1
4-1/M82	0.86967	1
4-3-2/M82	1.56997	0.508
4-3/M82	1.13524	1
5-3/M82	1.03006	1
6-2/M82	0.76227	0.481
6-3/M82	0.95323	1
7-1/M82	1.0674	0.925
7-2/M82	1.05159	1
9-3-2/M82	0.88016	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.19335	0.46
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.86862	0.418
IL12-4/WTpooled	0.93974	0.71
IL1-4/WTpooled	0.92121
WT/WTpooled	1.00212	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	1.3385	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0412	0.914
DC3000/delta hrp 6h	1.0882	1
DC3000/delta hrp 12h	1.12109	1
DC3000/delta hrp 24h	1.06243	0.633

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.19343
DC3000 delta B/DC3000 delta AB	1.21347	0.358

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	3.11103	0.489
Exp 60h	2.28627	0.221

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97096	1
Var 0h	0.43207	0.933
Var 12h I row2-row1	1.16701	0.196
Var 12h NI row2-row1	0.87837	0.713
Var 36h I row2-row1	0.89321	1
Var 36h NI row2-row1	1.30185	1
Var 60h I row2-row1	1.21875	0.562
Var 60h NI row2-row1	1.15031	0.904
Time course 0hI-0hNI	1.15745	0.662
Time course 12hI-12hNI	1.04544	0.746
Time course 36hI-36hNI	1.13805	0.128
Time course 60hI-60hNI	2.84355	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	0.66234	0.15
transgenic ySAMdc/azygous control (red)	1.12667	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04631	0.125

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.0485	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.8916	1
Manapal/WT (break)	0.95655	1
Manapal/WT (red)	0.44659	0.184