Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.19.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.59178	0.111
27DAP/17DAP	1.85734	0.402
39DAP/27DAP	5.5576	0.02
41DAP/39DAP	2.60903	0.149
42DAP/41DAP	3.38793	0.021
43DAP/42DAP	2.01804	0.768
47DAP/43DAP	0.95695	0.754
52DAP/47DAP	0.57768	0.126
57DAP/52DAP	1.84689	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.55238	0.062
17DAP/reference	0.29656	0.005
27DAP/reference	0.72503	0.176
39DAP/reference	1.02708	0.663
41DAP/reference	0.80862	0.434
42DAP/reference	3.72745	0.003
43DAP/reference	6.81663
47DAP/reference	3.72838	0.001
52DAP/reference	1.87339	0.008
57DAP/reference	0.75582

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.41624	0.036
27DAP/17DAP	0.97353	0.887
39DAP/27DAP	6.02953	0.023
41DAP/39DAP	0.22315	0.013
42DAP/41DAP	4.17213	0.002
43DAP/42DAP	4.86854	0.013
47DAP/43DAP	0.79946	0.119
52DAP/47DAP	0.95278	0.839
57DAP/52DAP	1.15853	0.448
57DAP/7DAP	11.4215	0.207

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.14394	0.039
17DAP/reference	0.1614	0.01
27DAP/reference	0.21389	0.01
39DAP/reference	0.65491	0.039
41DAP/reference	0.38248	0.018
42DAP/reference	0.9906	0.506
43DAP/reference	1.73694	0.06
47DAP/reference	2.60926	0.014
52DAP/reference	0.60642	0.015
57DAP/reference	0.63384	0.011

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.56929	0.008
17DAP/reference	0.60649	0.01
27DAP/reference	0.59455	0.014
39DAP/reference	0.65426	0.037
41DAP/reference	0.74048	0.01
42DAP/reference	0.71375	0.015
43DAP/reference	0.48447	0.012
47DAP/reference	0.85119	0.145
52DAP/reference	0.48935	0.004
57DAP/reference	0.58898	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.15714	0.026
17DAP/reference	1.00968	0.144
27DAP/reference	0.1869	0.021
39DAP/reference	0.33631	0.008
41DAP/reference	0.4859	0.024
42DAP/reference	4.58722	0.006
43DAP/reference	5.51642	0.006
47DAP/reference	3.15065	0.004
52DAP/reference	3.53737	0.031
57DAP/reference	1.55767	0.075

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.22946	0.966
26DAP/20DAP	1.11353	0.85
34DAP/26DAP	1.29253	1
51DAP/34DAP	0.84103	0.714
52DAP/51DAP	0.45022	1
53DAP/52DAP	0.98716	0.876
55DAP/53DAP	0.8897	0.43
57DAP/55DAP	0.95262	0.736
62DAP/57DAP	1.10988	1
68DAP/62DAP	0.87939
68DAP/14DAP	1.70444	0.119

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	68.0323	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.15415	0.014
Immature Eggplant/Mature Eggplant	2.52286	1
Ripe Pepper/Ripe Tomato	0.05228	0.224
Mature Eggplant/Ripe Tomato	0.03706	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.14932	0.742
1-1-2/M82	1.02563	1
12-2/M82	0.95287	0.955
12-4/M82	1.04372	1
1-3/M82	1.50482	0.479
2-1-1/M82	0.92707	0.92
2-1/M82	1.02467	1
2-6/M82	0.92102	1
3-2/M82	1.07784	0.84
4-1-1/M82	1.03847	1
4-1/M82	1.56505	1
4-3-2/M82	0.84084	1
4-3/M82	0.93028	0.72
5-3/M82	0.97845	1
6-2/M82	0.99876	1
6-3/M82	1.03903	1
7-1/M82	1.02011	1
7-2/M82	0.9972	1
9-3-2/M82	0.89273	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.20622	0.493
IL2-6/WTpooled	1.12322	0.788
IL7-5/WTpooled	1.07232	1
IL7-3/WTpooled	0.83047	0.31
IL12-4/WTpooled	0.93147	0.71
IL1-4/WTpooled	0.85163	0.415
WT/WTpooled	1.11545	0.911

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	1.24463	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06885	0.758
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.88491	0.285

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	0.91927	1
Var 0h	1.01959	1
Var 12h I row2-row1	3.04056	0.613
Var 12h NI row2-row1	1.04987	1
Var 36h I row2-row1	1.12274	1
Var 36h NI row2-row1	1.02842	1
Var 60h I row2-row1	1.38999	1
Var 60h NI row2-row1	0.79623	0.63
Time course 0hI-0hNI	1.243	0.537
Time course 12hI-12hNI	0.96795	0.841
Time course 36hI-36hNI	0.91131	0.156
Time course 60hI-60hNI	1.43976	0.009

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)	0.40745	0.246
transgenic ySAMdc/azygous control (breaker)	1.06885	1
transgenic ySAMdc/azygous control (red)	1.14042	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.63861	0.032

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.35843	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.304	0.307
Manapal/WT (break)	1.24566	0.14
Manapal/WT (red)	0.87896	0.181