Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.14.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0135	0.689
27DAP/17DAP	1.16843	0.849
39DAP/27DAP	0.90035	0.594
41DAP/39DAP	0.97045	0.726
42DAP/41DAP	0.81125	1
43DAP/42DAP	1.00491	0.937
47DAP/43DAP	1.26424	0.733
52DAP/47DAP	1.11379	0.791
57DAP/52DAP	0.76201	0.622

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0414	0.638
17DAP/reference	0.88836	0.091
27DAP/reference	0.97758	0.654
39DAP/reference	0.892	0.254
41DAP/reference	0.94058	0.542
42DAP/reference	0.89716	0.023
43DAP/reference	0.87658	0.148
47DAP/reference	0.91315	0.127
52DAP/reference	0.99395	0.654
57DAP/reference	1.01432	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06712	1
27DAP/17DAP	1.18429	0.537
39DAP/27DAP	1.12115	0.471
41DAP/39DAP	0.93266	0.849
42DAP/41DAP	1.19979	0.651
43DAP/42DAP	1.30536	0.324
47DAP/43DAP	0.91879	0.543
52DAP/47DAP	0.97736	0.907
57DAP/52DAP	1.01396	1
57DAP/7DAP	1.18702	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83049	0.122
17DAP/reference	0.76594	0.021
27DAP/reference	0.86921	0.117
39DAP/reference	0.72235	0.011
41DAP/reference	0.77341	0.021
42DAP/reference	0.82322	0.05
43DAP/reference	0.72053	0.013
47DAP/reference	0.62836	0.05
52DAP/reference	0.64584	0.012
57DAP/reference	0.66439	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07063	0.75
17DAP/reference	1.08535	0.756
27DAP/reference	0.86208	0.108
39DAP/reference	0.75532	0.016
41DAP/reference	0.86517	0.145
42DAP/reference	0.95983	0.289
43DAP/reference	1.20919	0.466
47DAP/reference	0.83456	0.079
52DAP/reference	0.84573	0.027
57DAP/reference	0.79062	0.116

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87329	0.077
17DAP/reference	0.88826	0.243
27DAP/reference	0.73694	0.047
39DAP/reference	0.67756	0.008
41DAP/reference	0.73302	0.02
42DAP/reference	0.82587	0.108
43DAP/reference	0.67201	0.023
47DAP/reference	0.89367	0.076
52DAP/reference	0.7185	0.072
57DAP/reference	0.8273	0.089

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07082	0.966
26DAP/20DAP	0.91362	1
34DAP/26DAP	1.93329	0.819
51DAP/34DAP	1.33945	0.496
52DAP/51DAP	0.94747	1
53DAP/52DAP	0.77766	0.167
55DAP/53DAP	1.25144	0.712
57DAP/55DAP	1.01988	0.986
62DAP/57DAP	0.85466	0.28
68DAP/62DAP	0.83333	0.227
68DAP/14DAP	0.62868	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.68699	0.034

Experiment: Solanaceae fruit comparison

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

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91981
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	0.92001
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	1.47554
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.90234	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	1.06574
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.89407	1
IL2-6/WTpooled	1.21056	0.395
IL7-5/WTpooled	1.20308	1
IL7-3/WTpooled	0.93694	1
IL12-4/WTpooled	1.03764	0.891
IL1-4/WTpooled	1.12536	1
WT/WTpooled	1.00788	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	0.85698	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94638	1
DC3000/delta hrp 6h	1.38315	1
DC3000/delta hrp 12h	0.92401	1
DC3000/delta hrp 24h	0.86733	0.134

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.03786	1
Exp 36h	0.83981	0.749
Exp 60h	0.85585	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99526	1
Var 0h	0.55937	0.782
Var 12h I row2-row1	1.13693	0.613
Var 12h NI row2-row1	1.00725	1
Var 36h I row2-row1	0.94436	0.805
Var 36h NI row2-row1	3.45695	1
Var 60h I row2-row1	1.10308	0.543
Var 60h NI row2-row1	0.81299	0.329
Time course 0hI-0hNI	1.00065	1
Time course 12hI-12hNI	0.81792	0.052
Time course 36hI-36hNI	0.89634	0.088
Time course 60hI-60hNI	0.67074	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)	1.02631	0.863
transgenic ySAMdc/azygous control (breaker)	1.17173	0.248
transgenic ySAMdc/azygous control (red)	0.90938	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99912	0.94

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.11862	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.29678	0.096
Manapal/WT (break)	0.80228	1
Manapal/WT (red)	0.75842	0.229