Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-8.1.18.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91492	0.586
27DAP/17DAP	0.84906	0.631
39DAP/27DAP	1.41652	0.167
41DAP/39DAP	1.7336	0.545
42DAP/41DAP	2.12422	0.544
43DAP/42DAP	0.86944	0.705
47DAP/43DAP	1.232	0.49
52DAP/47DAP	1.0467	0.875
57DAP/52DAP	1.17762	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91988	0.254
17DAP/reference	0.82487	0.014
27DAP/reference	1.2242	0.794
39DAP/reference	0.8037	0.083
41DAP/reference	0.67628	0.01
42DAP/reference	0.81169	0.003
43DAP/reference	0.85728	0.042
47DAP/reference	0.92311	0.161
52DAP/reference	1.05963	1
57DAP/reference	1.2839	0.027

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9928	0.826
27DAP/17DAP	0.96958	0.878
39DAP/27DAP	0.89607	0.279
41DAP/39DAP	0.98061	0.945
42DAP/41DAP	1.06938	0.927
43DAP/42DAP	1.00824	1
47DAP/43DAP	0.93681	0.569
52DAP/47DAP	1.03769	0.856
57DAP/52DAP	0.95541	0.665
57DAP/7DAP	1.17031	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93172	0.361
17DAP/reference	0.9789	0.447
27DAP/reference	1.08551	0.551
39DAP/reference	0.92703	0.23
41DAP/reference	0.75907	0.014
42DAP/reference	0.88661	0.235
43DAP/reference	1.02234	1
47DAP/reference	0.93074	0.504
52DAP/reference	0.85416	0.106
57DAP/reference	1.11604	0.536

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83521	0.182
17DAP/reference	0.77588	0.007
27DAP/reference	0.9499	0.366
39DAP/reference	0.9888	0.569
41DAP/reference	0.94304	0.177
42DAP/reference	1.01091	1
43DAP/reference	0.73887	0.058
47DAP/reference	0.83387	0.025
52DAP/reference	0.97706	0.5
57DAP/reference	0.77606	0.037

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97577	0.566
17DAP/reference	0.82264	0.203
27DAP/reference	0.66582	0.147
39DAP/reference	0.79085	0.05
41DAP/reference	0.9316	0.264
42DAP/reference	0.83563	0.172
43DAP/reference	1.06519	0.617
47DAP/reference	0.97345	0.494
52DAP/reference	1.1228	0.871
57DAP/reference	1.35098	0.347

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0398	1
26DAP/20DAP	1.16454	0.806
34DAP/26DAP	1.11042	1
51DAP/34DAP	1.01497	0.927
52DAP/51DAP	0.85559	1
53DAP/52DAP	0.87094	0.435
55DAP/53DAP	1.09995	1
57DAP/55DAP	1.133	0.543
62DAP/57DAP	1.12253	1
68DAP/62DAP	1.61619	0.019
68DAP/14DAP	1.81427	0.05

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.09682	0.821

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.21531	0.176
Mature Green Tomato/Ripe Tomato	1.10661	0.752
Immature Eggplant/Mature Eggplant	0.9465	0.493
Ripe Pepper/Ripe Tomato	1.21735	1
Mature Eggplant/Ripe Tomato	1.78156	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.30585	0.536
1-1-2/M82	1.09146	0.972
12-2/M82	0.81575	0.955
12-4/M82	1.36348	0.611
1-3/M82	1.67614	N/A
2-1-1/M82	1.07522	0.422
2-1/M82	N/A	N/A
2-6/M82	0.90918	N/A
3-2/M82	1.83355	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.93556	1
4-3/M82	1.21634	N/A
5-3/M82	1.15704	0.572
6-2/M82	1.29182	1
6-3/M82	0.84357	1
7-1/M82	0.99729	N/A
7-2/M82	1.13453	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.06822	1
IL2-6/WTpooled	0.73249	1
IL7-5/WTpooled	0.34739	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.18742	0.646
IL1-4/WTpooled	0.95768	N/A
WT/WTpooled	0.95234	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	0.95744	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.38331	0.921
DC3000/delta hrp 6h	0.99991	0.95
DC3000/delta hrp 12h	1.05226	1
DC3000/delta hrp 24h	0.89964	0.534

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.13304	N/A
DC3000 delta B/DC3000 delta AB	1.2512	0.199

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.09889	1
Exp 36h	0.97679	0.943
Exp 60h	1.10192	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0766	1
Var 0h	1.04749	1
Var 12h I row2-row1	0.91178	0.344
Var 12h NI row2-row1	1.25722	0.649
Var 36h I row2-row1	1.39194	0.601
Var 36h NI row2-row1	0.91896	0.743
Var 60h I row2-row1	0.98689	1
Var 60h NI row2-row1	0.81794	0.69
Time course 0hI-0hNI	1.15697	0.574
Time course 12hI-12hNI	1.04146	0.818
Time course 36hI-36hNI	1.32134	0.08
Time course 60hI-60hNI	1.31851	0.096

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)	0.86293	0.428
transgenic ySAMdc/azygous control (breaker)	0.8865	0.251
transgenic ySAMdc/azygous control (red)	1.05316	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.13579	0.334

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.86668	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.03454	1
Manapal/WT (break)	0.88812	1
Manapal/WT (red)	1.09798	0.413