Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.2.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.6061	0.23
27DAP/17DAP	1.52029	0.785
39DAP/27DAP	0.89391	0.663
41DAP/39DAP	1.15576	0.511
42DAP/41DAP	2.12045	0.021
43DAP/42DAP	1.24578	0.629
47DAP/43DAP	0.93959	0.736
52DAP/47DAP	1.67472	0.624
57DAP/52DAP	0.98863	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74328	0.03
17DAP/reference	0.69693	0.007
27DAP/reference	0.99371	0.797
39DAP/reference	0.79484	0.044
41DAP/reference	0.65482	0.008
42DAP/reference	0.90904	0.078
43DAP/reference	0.90793	0.287
47DAP/reference	1.0448	0.91
52DAP/reference	1.25285	0.072
57DAP/reference	1.35244	0.017

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	N/A	N/A
27DAP/17DAP	1.4651	0.407
39DAP/27DAP	N/A	N/A
41DAP/39DAP	0.84693	0.959
42DAP/41DAP	1.36665	0.401
43DAP/42DAP	1.3781	0.664
47DAP/43DAP	0.45006	0.131
52DAP/47DAP	0.85855	0.778
57DAP/52DAP	1.5959	0.305
57DAP/7DAP	0.80033	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.33859	0.07
17DAP/reference	1.86647	0.016
27DAP/reference	1.2263	0.301
39DAP/reference	1.37715	0.024
41DAP/reference	1.10854	1
42DAP/reference	1.65545	0.046
43DAP/reference	1.4267	0.063
47DAP/reference	1.20806	0.36
52DAP/reference	1.25291	0.046
57DAP/reference	1.36	0.01

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77155	0.038
17DAP/reference	0.73542	0.003
27DAP/reference	1.03434	0.847
39DAP/reference	1.04399	0.702
41DAP/reference	0.97018	0.412
42DAP/reference	0.96964	0.433
43DAP/reference	0.74997	0.034
47DAP/reference	0.81386	0.021
52DAP/reference	1.00892	1
57DAP/reference	0.78123	0.063

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.35511	0.644
17DAP/reference	1.11014	0.712
27DAP/reference	1.33835	0.12
39DAP/reference	1.22819	0.108
41DAP/reference	1.27336	0.15
42DAP/reference	1.30029	0.175
43DAP/reference	1.42465	0.059
47DAP/reference	0.87631	0.12
52DAP/reference	0.91661	0.433
57DAP/reference	1.25725	0.187

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.80608	0.961
26DAP/20DAP	N/A	N/A
34DAP/26DAP	2.33345	0.542
51DAP/34DAP	1.31498	0.535
52DAP/51DAP	1.15146	0.792
53DAP/52DAP	1.34219	0.819
55DAP/53DAP	0.93253	0.233
57DAP/55DAP	0.41657	0.011
62DAP/57DAP	1.26127	0.445
68DAP/62DAP	2.30054	0.017
68DAP/14DAP	2.77167	0.02

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.0445	0.045

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.17849	0.017
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.15635
Mature Eggplant/Ripe Tomato	0.66079	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.08514	1
1-1-2/M82	1.07757	1
12-2/M82	1.19263
12-4/M82	0.92168	0.319
1-3/M82	0.85515
2-1-1/M82	1.10407	0.764
2-1/M82	1.10219
2-6/M82	1.07104	1
3-2/M82	N/A	N/A
4-1-1/M82	1.26327	1
4-1/M82	N/A	N/A
4-3-2/M82	0.77798
4-3/M82	1.20514	1
5-3/M82	1.07539	1
6-2/M82	1.01598
6-3/M82	N/A	N/A
7-1/M82	1.37646
7-2/M82	0.91282	0.578
9-3-2/M82	2.37434

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.89937	0.321
IL2-6/WTpooled	0.5218	1
IL7-5/WTpooled	0.9869	1
IL7-3/WTpooled	0.82323	0.294
IL12-4/WTpooled	0.99668	1
IL1-4/WTpooled	0.97882	1
WT/WTpooled	1.11321	0.805

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0065	1
DC3000/delta hrp 6h	1.00381	0.95
DC3000/delta hrp 12h	0.87422	1
DC3000/delta hrp 24h	1.1403	0.69

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	1.00022	1
Exp 36h	1.44031	1
Exp 60h	0.95815	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.75908	0.21
Var 12h I row2-row1	1.17006	0.736
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.04149	0.571
transgenic ySAMdc/azygous control (breaker)	0.98946	1
transgenic ySAMdc/azygous control (red)	1.05953	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.88291	0.055

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.14451	1

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

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