Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.15.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.26834	0.014
27DAP/17DAP	0.95266	0.913
39DAP/27DAP	0.9157	0.641
41DAP/39DAP	1.40774	0.289
42DAP/41DAP	0.9266	1
43DAP/42DAP	0.90029	0.783
47DAP/43DAP	1.05606	0.999
52DAP/47DAP	1.28401	0.515
57DAP/52DAP	0.99323	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98726	0.63
17DAP/reference	0.90099	0.097
27DAP/reference	1.04643	0.587
39DAP/reference	0.99015	0.855
41DAP/reference	0.91452	0.341
42DAP/reference	0.84914	0.007
43DAP/reference	0.91731	0.084
47DAP/reference	0.92101	0.148
52DAP/reference	1.1484	0.242
57DAP/reference	1.22334	0.057

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.43949	0.036
27DAP/17DAP	0.87516	0.748
39DAP/27DAP	0.90411	0.432
41DAP/39DAP	0.90286	0.747
42DAP/41DAP	1.06746	1
43DAP/42DAP	0.94405	0.576
47DAP/43DAP	0.93738	0.757
52DAP/47DAP	1.19619	0.498
57DAP/52DAP	1.02744	0.905
57DAP/7DAP	0.40425	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05084	0.589
17DAP/reference	1.40272	0.009
27DAP/reference	1.37181	0.026
39DAP/reference	1.58474	0.007
41DAP/reference	1.72132	0.013
42DAP/reference	1.42772	0.013
43DAP/reference	1.52783	0.009
47DAP/reference	1.25658	0.337
52DAP/reference	1.27738	0.033
57DAP/reference	1.55772	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14422	0.103
17DAP/reference	0.80849	0.004
27DAP/reference	0.94002	0.366
39DAP/reference	0.89804	0.165
41DAP/reference	0.99058	0.557
42DAP/reference	0.96375	0.433
43DAP/reference	0.92271	0.378
47DAP/reference	0.92826	0.227
52DAP/reference	0.93129	0.078
57DAP/reference	0.89406	0.043

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10982	0.56
17DAP/reference	1.17421	0.602
27DAP/reference	1.92092	0.02
39DAP/reference	1.67721	0.006
41DAP/reference	1.33156	0.035
42DAP/reference	1.18501	0.184
43DAP/reference	1.14766	0.555
47DAP/reference	0.96645	0.421
52DAP/reference	0.96124	0.637
57DAP/reference	1.07037	0.673

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03681	1
26DAP/20DAP	0.72985	0.512
34DAP/26DAP	1.32269	0.819
51DAP/34DAP	0.83234	0.624
52DAP/51DAP	1.05764	0.626
53DAP/52DAP	0.88924	0.544
55DAP/53DAP	1.41442	0.172
57DAP/55DAP	0.97799	0.872
62DAP/57DAP	1.0935	0.868
68DAP/62DAP	1.23141	0.481
68DAP/14DAP	1.39749	0.051

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.04035	0.737

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.26909	0.058
Mature Green Tomato/Ripe Tomato	1.42109	0.017
Immature Eggplant/Mature Eggplant	1.8103	0.05
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	15.4

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	1.01853
1-3/M82	0.33944
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	0.87881	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	1.15383
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.99599	1
IL2-6/WTpooled	1.54846	0.395
IL7-5/WTpooled	1.14025	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.65597	0.646
IL1-4/WTpooled	0.90402	0.699
WT/WTpooled	0.91467	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01101	1
DC3000/delta hrp 6h	1.08741	1
DC3000/delta hrp 12h	0.9403	1
DC3000/delta hrp 24h	1.0294	0.821

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.46197
DC3000 delta B/DC3000 delta AB	0.57441	0.03

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06088	1
Exp 36h	1.21347	1
Exp 60h	1.01314	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.93447
Var 0h	1.59038	0.421
Var 12h I row2-row1	0.64221	0.363
Var 12h NI row2-row1	0.96394	0.906
Var 36h I row2-row1	0.98259	1
Var 36h NI row2-row1	0.51811	0.421
Var 60h I row2-row1	1.27638	0.347
Var 60h NI row2-row1	0.89742	0.4
Time course 0hI-0hNI	0.84856	0.151
Time course 12hI-12hNI	0.74975	0.063
Time course 36hI-36hNI	0.60574	0.029
Time course 60hI-60hNI	0.38291	0.006

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)	0.8256	0.315
transgenic ySAMdc/azygous control (breaker)	0.88482	0.15
transgenic ySAMdc/azygous control (red)	2.06831	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.22584	0.086

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.18874	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.49532	1
Manapal/WT (break)	1.43462	0.381
Manapal/WT (red)	N/A	N/A