Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-5.3.8.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82844	0.436
27DAP/17DAP	1.11773	1
39DAP/27DAP	1.29068	0.363
41DAP/39DAP	1.22759	0.288
42DAP/41DAP	1.26776	0.493
43DAP/42DAP	1.28688	0.755
47DAP/43DAP	1.19485	0.746
52DAP/47DAP	0.89574	0.641
57DAP/52DAP	1.05835	0.995

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94976	0.412
17DAP/reference	1.08719	0.427
27DAP/reference	0.90551	0.187
39DAP/reference	0.95613	0.554
41DAP/reference	1.13172	0.338
42DAP/reference	0.76365	0.012
43DAP/reference	0.9688	0.631
47DAP/reference	0.85767	0.038
52DAP/reference	0.84798	0.064
57DAP/reference	0.81798	0.018

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1326	0.312
27DAP/17DAP	1.15204	0.751
39DAP/27DAP	1.26607	0.353
41DAP/39DAP	1.01193	1
42DAP/41DAP	0.8929	0.456
43DAP/42DAP	0.76807	0.038
47DAP/43DAP	1.15339	0.88
52DAP/47DAP	1.01892	0.973
57DAP/52DAP	0.97385	0.745
57DAP/7DAP	1.31028	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90623	0.361
17DAP/reference	1.05546	1
27DAP/reference	1.2537	0.017
39DAP/reference	0.79436	0.017
41DAP/reference	0.86592	0.103
42DAP/reference	1.11698	0.686
43DAP/reference	1.04683	0.83
47DAP/reference	0.82469	0.101
52DAP/reference	1.09561	0.526
57DAP/reference	0.87788	0.144

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.972	0.72
17DAP/reference	1.1566	0.236
27DAP/reference	0.95254	0.407
39DAP/reference	0.99777	0.702
41DAP/reference	0.99795	0.615
42DAP/reference	0.89035	0.016
43DAP/reference	1.72934	0.022
47DAP/reference	1.14572	0.159
52DAP/reference	1.01094	1
57DAP/reference	1.03005	0.771

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82841	0.05
17DAP/reference	0.99482	0.763
27DAP/reference	0.99177	0.727
39DAP/reference	0.86515	0.022
41DAP/reference	1.00112	0.826
42DAP/reference	0.98649	0.816
43DAP/reference	0.78275	0.095
47DAP/reference	1.05239	0.966
52DAP/reference	0.81521	0.15
57DAP/reference	0.84759	0.136

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.86029	0.773
26DAP/20DAP	1.62871	0.166
34DAP/26DAP	0.7403	0.2
51DAP/34DAP	1.6179	0.177
52DAP/51DAP	0.74503	1
53DAP/52DAP	1.11415	0.697
55DAP/53DAP	0.88402	0.43
57DAP/55DAP	1.21226	0.997
62DAP/57DAP	0.78972	0.05
68DAP/62DAP	1.32908	0.059
68DAP/14DAP	0.91058	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.66526	0.108

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.83879	0.331
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.61763	N/A
1-3/M82	N/A	N/A
2-1-1/M82	0.99394	N/A
2-1/M82	N/A	N/A
2-6/M82	2.94061	N/A
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	1.12681	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.41182	N/A
9-3-2/M82	0.65447	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.04172	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.98628	1
IL12-4/WTpooled	0.90644	0.581
IL1-4/WTpooled	1.10036	0.426
WT/WTpooled	0.85892	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	1.0242	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0663	0.921
DC3000/delta hrp 6h	1.46613	1
DC3000/delta hrp 12h	0.99736	1
DC3000/delta hrp 24h	0.9144	0.543

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	0.86887	0.328
Exp 36h	1.22147	1
Exp 60h	0.92717	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97252	1
Var 0h	1.09294	0.936
Var 12h I row2-row1	1.40773	0.348
Var 12h NI row2-row1	1.13398	1
Var 36h I row2-row1	1.15873	0.908
Var 36h NI row2-row1	0.9692	0.791
Var 60h I row2-row1	0.79222	0.582
Var 60h NI row2-row1	0.95962	1
Time course 0hI-0hNI	0.89883	0.256
Time course 12hI-12hNI	1.01773	0.824
Time course 36hI-36hNI	0.94554	0.426
Time course 60hI-60hNI	0.75161	0.015

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)	0.96305	0.614
transgenic ySAMdc/azygous control (breaker)	0.78983	0.251
transgenic ySAMdc/azygous control (red)	1.22476	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06512	0.08

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.85587	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.79825	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.04677	1