Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.9.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11823	0.997
27DAP/17DAP	1.16295	0.872
39DAP/27DAP	0.85763	0.529
41DAP/39DAP	1.15616	0.612
42DAP/41DAP	1.27202	1
43DAP/42DAP	1.22558	0.933
47DAP/43DAP	1.03976	0.972
52DAP/47DAP	0.96524	0.845
57DAP/52DAP	0.88556	0.827

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87551	0.162
17DAP/reference	0.97916	0.664
27DAP/reference	0.98098	0.668
39DAP/reference	0.91113	0.141
41DAP/reference	1.0798	0.241
42DAP/reference	0.92258	0.188
43DAP/reference	1.03961	0.73
47DAP/reference	0.98613	0.503
52DAP/reference	0.88135	0.105
57DAP/reference	0.98173	0.553

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.36698	0.975
27DAP/17DAP	1.14392	0.909
39DAP/27DAP	1.15158	0.512
41DAP/39DAP	1.32727	0.294
42DAP/41DAP	1.10697	0.46
43DAP/42DAP	0.89668	0.522
47DAP/43DAP	0.94808	0.647
52DAP/47DAP	0.91084	0.3
57DAP/52DAP	1.01544	0.902
57DAP/7DAP	1.62136	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93399	0.224
17DAP/reference	1.01722	1
27DAP/reference	1.04871	0.974
39DAP/reference	1.08039	0.669
41DAP/reference	0.88046	0.103
42DAP/reference	1.12808	0.534
43DAP/reference	1.03359	0.569
47DAP/reference	1.18628	0.241
52DAP/reference	0.89602	0.232
57DAP/reference	1.11814	0.094

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18402	0.66
17DAP/reference	1.00045	0.747
27DAP/reference	0.87637	0.173
39DAP/reference	0.79839	0.049
41DAP/reference	0.93972	0.322
42DAP/reference	0.75805	0.046
43DAP/reference	1.27425	0.407
47DAP/reference	0.93951	0.284
52DAP/reference	0.89088	0.121
57DAP/reference	0.90254	0.208

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04983	0.691
17DAP/reference	1.23121	0.306
27DAP/reference	1.14113	0.111
39DAP/reference	1.15967	0.169
41DAP/reference	1.05635	0.502
42DAP/reference	0.96895	0.445
43DAP/reference	0.80016	0.116
47DAP/reference	0.86156	0.084
52DAP/reference	1.12272	0.89
57DAP/reference	0.85438	0.147

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07245	0.966
26DAP/20DAP	0.99026	1
34DAP/26DAP	0.63196	0.419
51DAP/34DAP	1.82205	0.025
52DAP/51DAP	1.03198	0.915
53DAP/52DAP	1.32696	0.688
55DAP/53DAP	1.21071	0.764
57DAP/55DAP	1.03893	1
62DAP/57DAP	1.11327	0.515
68DAP/62DAP	0.94596	0.81
68DAP/14DAP	0.94379	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9839	0.635

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.84517	0.134
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.12539

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.75819	0.907
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	0.57649
2-1-1/M82	1.05299	0.764
2-1/M82	N/A	N/A
2-6/M82	1.05962
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	1.01575	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.27044
7-2/M82	0.82153	0.578
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	1.19385
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.23392	1
IL12-4/WTpooled	1.39859	0.516
IL1-4/WTpooled	1.27678
WT/WTpooled	1.09386	0.89

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	1.02267	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00658	1
DC3000/delta hrp 6h	0.18873
DC3000/delta hrp 12h	0.94293	1
DC3000/delta hrp 24h	1.02176	0.76

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	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	0.99958	1
Var 0h	1.00233	1
Var 12h I row2-row1	1.96563	0.473
Var 12h NI row2-row1	6.24961	1
Var 36h I row2-row1	0.96855	1
Var 36h NI row2-row1	0.61397	0.743
Var 60h I row2-row1	0.86764	0.439
Var 60h NI row2-row1	0.627	0.866
Time course 0hI-0hNI	0.97439	0.903
Time course 12hI-12hNI	1.04193	0.724
Time course 36hI-36hNI	0.90981	0.153
Time course 60hI-60hNI	1.12366	0.16

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)	0.98907	0.862
transgenic ySAMdc/azygous control (breaker)	0.7185	0.125
transgenic ySAMdc/azygous control (red)	0.94633	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99733	0.858

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.01329	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.79676	0.172
Manapal/WT (break)	0.96302	1
Manapal/WT (red)	1.10029	1