Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.9.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91878	0.578
27DAP/17DAP	0.82451	0.572
39DAP/27DAP	1.17365	0.765
41DAP/39DAP	0.79281	0.218
42DAP/41DAP	0.87401	1
43DAP/42DAP	0.86874	0.713
47DAP/43DAP	0.69923	0.16
52DAP/47DAP	1.00359	0.886
57DAP/52DAP	1.03617	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07901	0.544
17DAP/reference	0.93488	0.419
27DAP/reference	0.92555	0.24
39DAP/reference	1.1354	0.119
41DAP/reference	1.01572	1
42DAP/reference	0.86117	0.02
43DAP/reference	0.91979	0.17
47DAP/reference	0.82365	0.002
52DAP/reference	0.96991	0.416
57DAP/reference	1.06482	0.529

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91498	0.402
27DAP/17DAP	1.04777	0.831
39DAP/27DAP	0.89541	0.338
41DAP/39DAP	1.15147	0.837
42DAP/41DAP	1.03926	0.947
43DAP/42DAP	0.91141	0.28
47DAP/43DAP	0.98705	0.939
52DAP/47DAP	0.70356	0.064
57DAP/52DAP	0.99226	0.828
57DAP/7DAP	0.43281	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.53913	0.03
17DAP/reference	1.89553	0.006
27DAP/reference	1.3546	0.014
39DAP/reference	1.21735	0.008
41DAP/reference	1.3073	0.034
42DAP/reference	1.15416	0.059
43DAP/reference	1.15652	0.05
47DAP/reference	1.02665	1
52DAP/reference	1.07451	0.636
57DAP/reference	1.11307	0.382

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18018	0.373
17DAP/reference	0.96595	0.523
27DAP/reference	1.26498	0.063
39DAP/reference	1.1145	0.097
41DAP/reference	1.12119	0.525
42DAP/reference	1.19375	0.04
43DAP/reference	1.24999	0.485
47DAP/reference	0.96296	0.423
52DAP/reference	1.2853	0.006
57DAP/reference	0.94866	0.384

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.89548	0.021
17DAP/reference	1.2845	0.538
27DAP/reference	1.47133	0.022
39DAP/reference	1.45426	0.009
41DAP/reference	1.36443	0.032
42DAP/reference	1.25094	0.084
43DAP/reference	1.26581	0.033
47DAP/reference	1.0443	0.966
52DAP/reference	1.03386	0.79
57DAP/reference	1.42373	0.02

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04795	0.966
26DAP/20DAP	1.8792	0.143
34DAP/26DAP	0.86234	0.561
51DAP/34DAP	1.03196	0.949
52DAP/51DAP	1.07378	0.651
53DAP/52DAP	1.06735	0.868
55DAP/53DAP	0.84335	0.389
57DAP/55DAP	1.1858	0.643
62DAP/57DAP	1.2921	0.393
68DAP/62DAP	2.60504	0.102
68DAP/14DAP	3.61754	0.02

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.08972	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.96787	0.765
Mature Green Tomato/Ripe Tomato	2.0282	0.015
Immature Eggplant/Mature Eggplant	1.24551	0.174
Ripe Pepper/Ripe Tomato	0.69701	0.293
Mature Eggplant/Ripe Tomato	0.66286	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96637
1-1-2/M82	1.12538	0.972
12-2/M82	N/A	N/A
12-4/M82	1.17014	0.694
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	0.75382
4-1-1/M82	N/A	N/A
4-1/M82	1.75556
4-3-2/M82	N/A	N/A
4-3/M82	0.89469
5-3/M82	0.98707	1
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	1.38658	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.16561	0.277
IL2-6/WTpooled	1.03086	0.659
IL7-5/WTpooled	1.1202	0.792
IL7-3/WTpooled	0.96822	1
IL12-4/WTpooled	0.97988	1
IL1-4/WTpooled	1.0194	1
WT/WTpooled	1.00925	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	0.87456	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05612	0.921
DC3000/delta hrp 6h	0.95878	0.95
DC3000/delta hrp 12h	1.07307	1
DC3000/delta hrp 24h	1.23993	0.243

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.17799	0.208
DC3000 delta B/DC3000 delta AB	1.25303	0.175

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.83571	1
Exp 36h	1.10376	0.693
Exp 60h	1.19167	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02245	1
Var 0h	1.51296	0.594
Var 12h I row2-row1	0.84496	0.338
Var 12h NI row2-row1	1.04116	1
Var 36h I row2-row1	1.07108	1
Var 36h NI row2-row1	0.93732	0.706
Var 60h I row2-row1	0.87349	0.439
Var 60h NI row2-row1	0.91009	0.977
Time course 0hI-0hNI	1.03313	0.852
Time course 12hI-12hNI	1.05031	0.682
Time course 36hI-36hNI	1.2621	0.009
Time course 60hI-60hNI	1.25513	0.037

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)	0.9096	0.301
transgenic ySAMdc/azygous control (breaker)	1.02098	1
transgenic ySAMdc/azygous control (red)	0.96176	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.07818	0.041

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.72744	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.90658	0.172
Manapal/WT (break)	0.83149	1
Manapal/WT (red)	0.9894	0.863