Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.12.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.75891	0.08
27DAP/17DAP	1.12708	0.92
39DAP/27DAP	1.04849	1
41DAP/39DAP	1.03525	0.944
42DAP/41DAP	1.1957	0.899
43DAP/42DAP	0.97008	0.91
47DAP/43DAP	0.97533	0.84
52DAP/47DAP	1.17208	0.758
57DAP/52DAP	1.00907	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03369	0.928
17DAP/reference	1.07693	0.045
27DAP/reference	1.17369	0.735
39DAP/reference	1.18901	0.101
41DAP/reference	1.17704	0.054
42DAP/reference	0.96166	0.259
43DAP/reference	0.98854	0.785
47DAP/reference	0.97538	0.418
52DAP/reference	0.87381	0.158
57DAP/reference	0.90999	0.118

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80522	0.194
27DAP/17DAP	0.99686	0.919
39DAP/27DAP	0.93399	0.616
41DAP/39DAP	1.33069	0.284
42DAP/41DAP	0.83581	0.173
43DAP/42DAP	1.12882	0.23
47DAP/43DAP	1.06199	0.853
52DAP/47DAP	0.98189	0.917
57DAP/52DAP	1.00239	0.869
57DAP/7DAP	0.9974	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.799	0.091
17DAP/reference	1.07717	0.328
27DAP/reference	1.1928	0.012
39DAP/reference	0.90684	0.198
41DAP/reference	0.98645	0.589
42DAP/reference	1.05082	0.686
43DAP/reference	1.08172	0.273
47DAP/reference	1.00877	1
52DAP/reference	1.02961	1
57DAP/reference	1.17275	0.057

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0633	0.732
17DAP/reference	1.14531	0.571
27DAP/reference	1.04416	1
39DAP/reference	0.96082	0.359
41DAP/reference	0.97394	0.412
42DAP/reference	0.83185	0.021
43DAP/reference	1.40673	0.037
47DAP/reference	1.12446	0.089
52DAP/reference	1.10799	0.145
57DAP/reference	1.23444	0.449

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91552	0.29
17DAP/reference	1.15274	0.436
27DAP/reference	1.41625	0.02
39DAP/reference	1.14397	0.307
41DAP/reference	1.10708	0.205
42DAP/reference	0.93971	0.445
43DAP/reference	0.75149	0.071
47DAP/reference	0.94048	0.348
52DAP/reference	1.05891	0.917
57DAP/reference	0.78669	0.05

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.72391	0.966
26DAP/20DAP	0.81205	0.317
34DAP/26DAP	1.13847	0.819
51DAP/34DAP	1.66056	0.303
52DAP/51DAP	0.98543	1
53DAP/52DAP	1.06011	0.753
55DAP/53DAP	1.26598	0.162
57DAP/55DAP	1.06005	0.71
62DAP/57DAP	1.05972	0.767
68DAP/62DAP	0.88216	0.579
68DAP/14DAP	0.54725	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.90002	0.198

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.13355
Immature Eggplant/Mature Eggplant	0.03
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.417

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.79993	0.275
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	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.91541	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	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	0.88024	1
IL7-5/WTpooled	1.91908	0.792
IL7-3/WTpooled	0.94337	1
IL12-4/WTpooled	1.22853	0.516
IL1-4/WTpooled	1.57515	1
WT/WTpooled	1.01979	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	1.38542	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02062	1
DC3000/delta hrp 6h	1.67807	1
DC3000/delta hrp 12h	1.10228	1
DC3000/delta hrp 24h	1.23758	0.038

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.1941
DC3000 delta B/DC3000 delta AB	1.48875	0.081

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.07581	1
Exp 36h	1.75493	0.409
Exp 60h	1.68923	0.22

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97905	1
Var 0h	0.63524	1
Var 12h I row2-row1	0.83533	0.627
Var 12h NI row2-row1	1.34926	0.649
Var 36h I row2-row1	1.10303	1
Var 36h NI row2-row1	0.62985	0.522
Var 60h I row2-row1	0.91614	0.832
Var 60h NI row2-row1	0.79891	0.63
Time course 0hI-0hNI	1.13104	0.297
Time course 12hI-12hNI	1.17176	0.073
Time course 36hI-36hNI	2.17768	0.008
Time course 60hI-60hNI	3.62722	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)	1.59324	0.612
transgenic ySAMdc/azygous control (breaker)	1.10678	1
transgenic ySAMdc/azygous control (red)	1.55997	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00797	0.811

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.49912	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.2894	1
Manapal/WT (red)	0.79492	0.181