Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.13.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.23171	0.485
27DAP/17DAP	1.00345	0.956
39DAP/27DAP	0.76725	0.286
41DAP/39DAP	1.22066	0.494
42DAP/41DAP	1.17487	0.722
43DAP/42DAP	1.06363	0.937
47DAP/43DAP	1.48353	0.4
52DAP/47DAP	0.94352	0.702
57DAP/52DAP	0.95518	0.952

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99877	0.787
17DAP/reference	1.0022	0.874
27DAP/reference	0.99164	0.763
39DAP/reference	1.0531	0.534
41DAP/reference	1.00068	1
42DAP/reference	0.92468	0.088
43DAP/reference	0.99254	0.84
47DAP/reference	0.91951	0.06
52DAP/reference	0.92016	0.135
57DAP/reference	0.99109	0.61

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9868	0.763
27DAP/17DAP	0.99392	0.969
39DAP/27DAP	1.01359	0.779
41DAP/39DAP	1.10476	0.773
42DAP/41DAP	0.96771	0.746
43DAP/42DAP	1.00481	1
47DAP/43DAP	0.99693	0.99
52DAP/47DAP	1.0345	0.856
57DAP/52DAP	1.04074	0.772
57DAP/7DAP	1.0606	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90323	0.203
17DAP/reference	0.79052	0.025
27DAP/reference	0.75417	0.012
39DAP/reference	0.92839	0.17
41DAP/reference	0.95021	0.341
42DAP/reference	0.833	0.07
43DAP/reference	0.81124	0.029
47DAP/reference	0.91487	0.168
52DAP/reference	0.8138	0.013
57DAP/reference	0.7858	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99777	0.907
17DAP/reference	1.01122	0.961
27DAP/reference	0.94488	0.366
39DAP/reference	0.90843	0.079
41DAP/reference	0.9845	0.519
42DAP/reference	1.08767	0.744
43DAP/reference	0.96238	0.516
47DAP/reference	1.03524	0.731
52DAP/reference	0.97699	0.351
57DAP/reference	0.99244	0.754

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81015	0.039
17DAP/reference	0.91479	0.305
27DAP/reference	0.77506	0.056
39DAP/reference	0.78648	0.024
41DAP/reference	0.83996	0.022
42DAP/reference	0.82502	0.071
43DAP/reference	0.73067	0.02
47DAP/reference	0.94773	0.315
52DAP/reference	0.68862	0.132
57DAP/reference	0.76826	0.027

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99531	1
26DAP/20DAP	0.94249	0.512
34DAP/26DAP	1.01439	1
51DAP/34DAP	0.92052	0.311
52DAP/51DAP	0.9557	0.151
53DAP/52DAP	1.00202	1
55DAP/53DAP	0.99899	0.939
57DAP/55DAP	0.99374	0.935
62DAP/57DAP	1.00249	0.994
68DAP/62DAP	1.42971	0.21
68DAP/14DAP	1.10241	0.694

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.86737	0.145

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.32374	0.134
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.65689	0.258
Mature Eggplant/Ripe Tomato	1.34582	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.00728	1
1-1-2/M82	0.92046	1
12-2/M82	1.12626
12-4/M82	0.96394	1
1-3/M82	0.68928
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.24697	0.594
3-2/M82	N/A	N/A
4-1-1/M82	0.82989	0.668
4-1/M82	0.95238
4-3-2/M82	0.91183	0.487
4-3/M82	0.89584
5-3/M82	1.04	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	1.0588	1
9-3-2/M82	0.80645

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.01094	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.03212	1
IL12-4/WTpooled	1.21638	0.531
IL1-4/WTpooled	0.98283
WT/WTpooled	1.00172	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	1.13897	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01437	0.921
DC3000/delta hrp 6h	0.89186	0.95
DC3000/delta hrp 12h	1.11946	1
DC3000/delta hrp 24h	1.05128	0.69

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.06662	0.384
DC3000 delta B/DC3000 delta AB	1.04779	0.535

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

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

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99321	1
Var 0h	0.61908	1
Var 12h I row2-row1	1.21825	0.204
Var 12h NI row2-row1	1.05993	1
Var 36h I row2-row1	0.96475	1
Var 36h NI row2-row1	0.8671	0.584
Var 60h I row2-row1	1.44296	1
Var 60h NI row2-row1	1.07844	1
Time course 0hI-0hNI	1.11376	0.799
Time course 12hI-12hNI	1.06958	0.663
Time course 36hI-36hNI	1.0389	0.453
Time course 60hI-60hNI	1.37324	0.042

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)	3.11406	0.212
transgenic ySAMdc/azygous control (breaker)	1.1309	1
transgenic ySAMdc/azygous control (red)	1.34927	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00346	0.811

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.21708	0.228

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)	N/A	N/A
Manapal/WT (red)	0.82167	0.36