Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.19.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83703	0.2
27DAP/17DAP	0.75823	0.5
39DAP/27DAP	1.37106	0.732
41DAP/39DAP	1.23733	0.657
42DAP/41DAP	1.07027	0.978
43DAP/42DAP	1.19256	0.671
47DAP/43DAP	1.09641	0.873
52DAP/47DAP	1.53791	0.48
57DAP/52DAP	1.30435	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94443	0.188
17DAP/reference	0.98987	0.777
27DAP/reference	0.982	0.683
39DAP/reference	1.00686	0.828
41DAP/reference	0.98272	0.814
42DAP/reference	1.05861	0.125
43DAP/reference	1.00263	1
47DAP/reference	1.06177	0.495
52DAP/reference	1.08575	0.371
57DAP/reference	0.96958	0.34

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96534	0.613
27DAP/17DAP	0.99625	0.969
39DAP/27DAP	1.05281	0.603
41DAP/39DAP	1.03813	0.921
42DAP/41DAP	1.02582	0.976
43DAP/42DAP	1.01788	0.699
47DAP/43DAP	1.02824	0.901
52DAP/47DAP	1.04601	0.831
57DAP/52DAP	1.06132	0.686
57DAP/7DAP	1.05587	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9265	0.122
17DAP/reference	0.97609	0.22
27DAP/reference	0.94873	0.039
39DAP/reference	0.98417	0.307
41DAP/reference	0.91974	0.054
42DAP/reference	0.9657	0.235
43DAP/reference	0.95732	0.151
47DAP/reference	0.87324	0.128
52DAP/reference	0.913	0.15
57DAP/reference	0.96037	0.083

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99411	0.884
17DAP/reference	1.03158	0.723
27DAP/reference	0.90626	0.181
39DAP/reference	0.88803	0.077
41DAP/reference	0.91719	0.152
42DAP/reference	0.9368	0.135
43DAP/reference	0.96676	0.539
47DAP/reference	1.05481	0.467
52DAP/reference	0.9252	0.018
57DAP/reference	1.00722	0.916

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9416	0.119
17DAP/reference	0.97757	0.592
27DAP/reference	0.98026	0.516
39DAP/reference	0.97723	0.504
41DAP/reference	0.97811	0.293
42DAP/reference	0.93557	0.087
43DAP/reference	0.94284	0.226
47DAP/reference	1.0196	1
52DAP/reference	0.9814	0.718
57DAP/reference	1.25332	0.067

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02291	0.966
26DAP/20DAP	0.9671	1
34DAP/26DAP	0.97765	0.97
51DAP/34DAP	0.86546	0.119
52DAP/51DAP	1.03257	0.842
53DAP/52DAP	0.98235	0.902
55DAP/53DAP	1.10155	0.527
57DAP/55DAP	0.96023	0.821
62DAP/57DAP	1.18166	0.158
68DAP/62DAP	0.97003	0.787
68DAP/14DAP	0.95642	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.92917	0.443

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.07642	0.018
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.17391	0.224
Mature Eggplant/Ripe Tomato	0.12663	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91813	0.736
1-1-2/M82	1.02084	1
12-2/M82	1.2237	0.421
12-4/M82	0.99687	1
1-3/M82	0.82798	0.378
2-1-1/M82	1.20343	0.764
2-1/M82	N/A	N/A
2-6/M82	0.98591	1
3-2/M82	0.97531
4-1-1/M82	0.96451	1
4-1/M82	1.11848
4-3-2/M82	0.96813
4-3/M82	0.9574	1
5-3/M82	0.97928	1
6-2/M82	0.99014	1
6-3/M82	0.99158	1
7-1/M82	N/A	N/A
7-2/M82	0.94728	0.599
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	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.85655	1
IL12-4/WTpooled	1.34037	0.532
IL1-4/WTpooled	0.87153	0.699
WT/WTpooled	0.99258	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	1.51559	0.222

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95543	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.20505	1
DC3000/delta hrp 24h	0.97638	0.875

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.12403	0.102
DC3000 delta B/DC3000 delta AB	1.08884	0.394

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	0.98845	1
Var 0h	0.96319	1
Var 12h I row2-row1	1.04227	0.613
Var 12h NI row2-row1	0.96218	0.906
Var 36h I row2-row1	0.93917	1
Var 36h NI row2-row1	0.95983	0.743
Var 60h I row2-row1	1.22927	0.562
Var 60h NI row2-row1	1.10102	1
Time course 0hI-0hNI	1.11987	0.764
Time course 12hI-12hNI	1.08196	0.63
Time course 36hI-36hNI	0.85897	0.171
Time course 60hI-60hNI	1.15733	0.053

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)	8.82111	0.256
transgenic ySAMdc/azygous control (breaker)	1.48258	1
transgenic ySAMdc/azygous control (red)	1.19485	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01367	0.619

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.46182	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.35405	0.172
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.78388	0.274