Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.6.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.73767	0.088
27DAP/17DAP	1.13345	0.845
39DAP/27DAP	1.06984	0.965
41DAP/39DAP	1.03008	0.915
42DAP/41DAP	1.04351	1
43DAP/42DAP	1.08654	0.991
47DAP/43DAP	1.14429	0.856
52DAP/47DAP	0.87208	0.612
57DAP/52DAP	1.11439	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87652	0.097
17DAP/reference	1.06627	0.031
27DAP/reference	0.97733	0.623
39DAP/reference	0.99535	0.941
41DAP/reference	1.10201	0.047
42DAP/reference	0.92333	0.04
43DAP/reference	0.97046	0.631
47DAP/reference	0.9685	0.161
52DAP/reference	0.85263	0.143
57DAP/reference	0.94049	0.262

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02944	0.762
27DAP/17DAP	1.00079	1
39DAP/27DAP	0.9727	0.775
41DAP/39DAP	1.16061	0.031
42DAP/41DAP	0.99363	0.872
43DAP/42DAP	0.95492	0.558
47DAP/43DAP	1.06641	0.788
52DAP/47DAP	0.91809	0.575
57DAP/52DAP	0.90713	0.384
57DAP/7DAP	1.21508	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91756	0.115
17DAP/reference	0.86081	0.021
27DAP/reference	0.8982	0.058
39DAP/reference	0.93915	0.198
41DAP/reference	0.81186	0.016
42DAP/reference	0.78971	0.011
43DAP/reference	0.80408	0.027
47DAP/reference	0.90613	0.101
52DAP/reference	0.84782	0.072
57DAP/reference	0.88448	0.156

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98217	0.669
17DAP/reference	0.97617	0.487
27DAP/reference	0.93196	0.188
39DAP/reference	0.92924	0.097
41DAP/reference	0.90442	0.13
42DAP/reference	0.9456	0.289
43DAP/reference	0.95714	0.423
47DAP/reference	1.04526	0.301
52DAP/reference	0.89535	0.06
57DAP/reference	0.97531	0.549

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86108	0.068
17DAP/reference	0.9723	0.579
27DAP/reference	0.81188	0.049
39DAP/reference	0.89011	0.058
41DAP/reference	0.91648	0.132
42DAP/reference	0.79379	0.019
43DAP/reference	0.89992	0.052
47DAP/reference	0.97476	0.434
52DAP/reference	0.9084	0.25
57DAP/reference	0.91205	0.104

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06664	0.631
26DAP/20DAP	1.06003	0.778
34DAP/26DAP	1.0054	1
51DAP/34DAP	0.86372	0.449
52DAP/51DAP	1.18895	0.534
53DAP/52DAP	0.94921	0.767
55DAP/53DAP	1.1313	0.407
57DAP/55DAP	1.25993	0.525
62DAP/57DAP	1.0899	0.902
68DAP/62DAP	0.91898	0.769
68DAP/14DAP	1.29744	0.311

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.05376	0.415

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.59832	0.176
Mature Green Tomato/Ripe Tomato	1.95266	0.299
Immature Eggplant/Mature Eggplant	1.69862	0.054
Ripe Pepper/Ripe Tomato	1.90674	1
Mature Eggplant/Ripe Tomato	1.79114	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.90642	0.944
1-1-2/M82	0.97388
12-2/M82	1.06957
12-4/M82	0.89553
1-3/M82	1.18687
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.88878	1
3-2/M82	N/A	N/A
4-1-1/M82	1.01227	1
4-1/M82	1.02802	1
4-3-2/M82	1.04871	0.508
4-3/M82	0.91457	1
5-3/M82	0.95272	1
6-2/M82	0.74562	0.481
6-3/M82	0.97249	1
7-1/M82	1.30163
7-2/M82	0.92806	0.881
9-3-2/M82	0.97542	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.86455
IL2-6/WTpooled	1.00081	1
IL7-5/WTpooled	0.87906	1
IL7-3/WTpooled	1.01619	1
IL12-4/WTpooled	1.04038	0.839
IL1-4/WTpooled	1.09632	1
WT/WTpooled	1.05987	0.874

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	1.05091	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99307	1
DC3000/delta hrp 6h	1.10823	1
DC3000/delta hrp 12h	1.05885	1
DC3000/delta hrp 24h	0.79493	0.046

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.03749	0.556
DC3000 delta B/DC3000 delta AB	1.08003	0.437

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.04129	1
Exp 36h	1.03127	1
Exp 60h	1.0214	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96863	1
Var 0h	0.50819	0.936
Var 12h I row2-row1	1.02789	0.795
Var 12h NI row2-row1	0.95668	0.82
Var 36h I row2-row1	1.06478	1
Var 36h NI row2-row1	1.08061	1
Var 60h I row2-row1	1.05039	0.562
Var 60h NI row2-row1	0.9907	1
Time course 0hI-0hNI	0.99724	1
Time course 12hI-12hNI	1.03615	0.738
Time course 36hI-36hNI	1.02053	0.355
Time course 60hI-60hNI	0.98524	1

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)	1.00125	0.931
transgenic ySAMdc/azygous control (breaker)	2.05816	0.178
transgenic ySAMdc/azygous control (red)	1.38149	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9854	0.486

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.9646	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	8.40414	0.084
Manapal/WT (break)	3.21896	0.183
Manapal/WT (red)	1.99493	0.134