Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.10.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00682	1
27DAP/17DAP	1.0417	0.91
39DAP/27DAP	0.89172	0.39
41DAP/39DAP	1.17956	0.498
42DAP/41DAP	0.96809	1
43DAP/42DAP	0.98337	0.925
47DAP/43DAP	0.9523	0.821
52DAP/47DAP	0.92362	0.769
57DAP/52DAP	1.10451	0.787

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19771	0.081
17DAP/reference	1.15156	0.071
27DAP/reference	1.10883	0.103
39DAP/reference	1.02219	0.816
41DAP/reference	1.32325	0.111
42DAP/reference	1.32503	0.001
43DAP/reference	1.0616	0.617
47DAP/reference	1.23318	0.001
52DAP/reference	1.39195	0.023
57DAP/reference	1.17389	0.195

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90527	0.323
27DAP/17DAP	0.95625	0.821
39DAP/27DAP	0.93541	0.4
41DAP/39DAP	0.87293	0.333
42DAP/41DAP	1.07383	0.852
43DAP/42DAP	1.05283	0.554
47DAP/43DAP	1.04388	0.788
52DAP/47DAP	1.16702	0.543
57DAP/52DAP	1.03722	0.971
57DAP/7DAP	0.8454	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83948	0.146
17DAP/reference	0.83175	0.013
27DAP/reference	0.78348	0.01
39DAP/reference	0.85164	0.011
41DAP/reference	0.92925	0.223
42DAP/reference	0.80434	0.012
43DAP/reference	0.81688	0.014
47DAP/reference	0.86956	0.168
52DAP/reference	0.79814	0.021
57DAP/reference	0.90951	0.183

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30016	0.21
17DAP/reference	1.48944	0.008
27DAP/reference	1.25953	0.516
39DAP/reference	1.4322	0.033
41DAP/reference	1.36425	0.037
42DAP/reference	1.3016	0.016
43DAP/reference	1.19046	0.09
47DAP/reference	1.17623	0.011
52DAP/reference	1.46818	0.006
57DAP/reference	1.35636	0.017

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85133	0.077
17DAP/reference	1.01075	0.934
27DAP/reference	0.83352	0.033
39DAP/reference	0.83503	0.028
41DAP/reference	0.90561	0.148
42DAP/reference	0.91467	0.445
43DAP/reference	1.03976	0.767
47DAP/reference	1.00903	1
52DAP/reference	0.75174	0.15
57DAP/reference	1.1689	0.706

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01957	0.966
26DAP/20DAP	1.13008	0.567
34DAP/26DAP	0.84594	0.519
51DAP/34DAP	1.18053	0.251
52DAP/51DAP	0.90897	1
53DAP/52DAP	1.25942	0.458
55DAP/53DAP	0.98113	0.838
57DAP/55DAP	1.20121	0.906
62DAP/57DAP	1.05643	1
68DAP/62DAP	1.0593	0.863
68DAP/14DAP	0.88205	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.85595	0.102

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.4952	0.095
Mature Green Tomato/Ripe Tomato	1.08942	0.632
Immature Eggplant/Mature Eggplant	0.95017	0.594
Ripe Pepper/Ripe Tomato	4.72941	0.258
Mature Eggplant/Ripe Tomato	5.37325	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97935	0.961
1-1-2/M82	0.84621	1
12-2/M82	0.96002	0.955
12-4/M82	0.94343	1
1-3/M82	0.97733	1
2-1-1/M82	0.86406	0.465
2-1/M82	1.30793	1
2-6/M82	0.96655	1
3-2/M82	0.98885	1
4-1-1/M82	0.9439	1
4-1/M82	0.94373	1
4-3-2/M82	0.82501	0.698
4-3/M82	0.95018	0.72
5-3/M82	0.99355	1
6-2/M82	0.99839	1
6-3/M82	1.0045	1
7-1/M82	0.99497	1
7-2/M82	0.92384	0.796
9-3-2/M82	0.7966	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.31506
IL1-4/WTpooled	1.64884
WT/WTpooled	1.52362	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	1.0527	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95477	1
DC3000/delta hrp 6h	1.03048	1
DC3000/delta hrp 12h	1.24866	1
DC3000/delta hrp 24h	1.07382	0.243

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.76397	0.538
DC3000 delta B/DC3000 delta AB	0.69086	0.028

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.47721	1
Exp 36h	0.91575	0.82
Exp 60h	0.8484	0.586

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01701	1
Var 0h	1.00748	1
Var 12h I row2-row1	0.82286	0.39
Var 12h NI row2-row1	0.96246	0.906
Var 36h I row2-row1	1.05739	1
Var 36h NI row2-row1	1.03541	0.276
Var 60h I row2-row1	1.45217	0.562
Var 60h NI row2-row1	1.04484	1
Time course 0hI-0hNI	0.96962	0.777
Time course 12hI-12hNI	0.95073	0.484
Time course 36hI-36hNI	0.80251	0.073
Time course 60hI-60hNI	0.21949	0.005

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)	1.3553	0.297
transgenic ySAMdc/azygous control (breaker)	3.34701	0.165
transgenic ySAMdc/azygous control (red)	0.97734	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.88419	0.048

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.75546	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.78398	1
Manapal/WT (break)	1.24352	0.381
Manapal/WT (red)	0.98704	0.863