Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.10.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0371	0.912
27DAP/17DAP	0.93697	0.863
39DAP/27DAP	0.69822	0.39
41DAP/39DAP	1.21168	0.63
42DAP/41DAP	1.06043	1
43DAP/42DAP	0.9559	0.888
47DAP/43DAP	0.94658	0.799
52DAP/47DAP	1.57001	0.298
57DAP/52DAP	0.8199	0.622

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97092	0.455
17DAP/reference	1.0189	0.696
27DAP/reference	0.97626	0.484
39DAP/reference	1.02357	0.368
41DAP/reference	0.96273	0.667
42DAP/reference	0.92451	0.024
43DAP/reference	0.9942	0.84
47DAP/reference	0.89687	0.009
52DAP/reference	0.98658	0.636
57DAP/reference	0.9189	0.056

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93451	0.496
27DAP/17DAP	0.99992	0.969
39DAP/27DAP	1.13905	0.441
41DAP/39DAP	1.0293	1
42DAP/41DAP	1.09908	0.687
43DAP/42DAP	0.98562	0.875
47DAP/43DAP	0.9726	0.886
52DAP/47DAP	0.91812	0.726
57DAP/52DAP	1.0665	0.657
57DAP/7DAP	1.0108	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92062	0.224
17DAP/reference	0.89133	0.018
27DAP/reference	0.85816	0.01
39DAP/reference	0.8657	0.013
41DAP/reference	0.83061	0.015
42DAP/reference	0.81933	0.014
43DAP/reference	0.83633	0.027
47DAP/reference	0.82989	0.034
52DAP/reference	0.76522	0.024
57DAP/reference	0.80701	0.03

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02381	0.66
17DAP/reference	1.03251	0.584
27DAP/reference	0.86236	0.108
39DAP/reference	0.90976	0.129
41DAP/reference	0.86392	0.049
42DAP/reference	0.92567	0.135
43DAP/reference	1.08373	0.386
47DAP/reference	0.93391	0.087
52DAP/reference	1.05268	0.259
57DAP/reference	1.07762	0.672

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99654	0.804
17DAP/reference	0.93487	0.335
27DAP/reference	0.87624	0.036
39DAP/reference	0.84713	0.025
41DAP/reference	0.86108	0.031
42DAP/reference	0.81398	0.02
43DAP/reference	0.79154	0.066
47DAP/reference	0.98984	0.61
52DAP/reference	0.83531	0.189
57DAP/reference	0.62959	0.019

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99727	1
26DAP/20DAP	0.9953	1
34DAP/26DAP	1.06546	1
51DAP/34DAP	0.93788	0.618
52DAP/51DAP	1.03731	0.662
53DAP/52DAP	1.07346	0.783
55DAP/53DAP	1.08919	0.622
57DAP/55DAP	0.90831	0.539
62DAP/57DAP	1.13704	0.303
68DAP/62DAP	1.09631	0.878
68DAP/14DAP	1.40198	0.714

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.93944	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.11015	0.055
Mature Green Tomato/Ripe Tomato	0.80741	0.2
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	14.841	1
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94867	0.944
1-1-2/M82	0.81156	0.804
12-2/M82	1.03521	1
12-4/M82	0.99567	1
1-3/M82	0.70476	0.376
2-1-1/M82	1.25099
2-1/M82	N/A	N/A
2-6/M82	0.99583	1
3-2/M82	0.95289
4-1-1/M82	0.98827	1
4-1/M82	0.91574	1
4-3-2/M82	1.01669
4-3/M82	0.85065	1
5-3/M82	1.07235
6-2/M82	0.89766	0.497
6-3/M82	N/A	N/A
7-1/M82	0.8009
7-2/M82	1.09454	1
9-3-2/M82	0.75144	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.13983	1
IL2-6/WTpooled	1.05425	0.659
IL7-5/WTpooled	0.80745	1
IL7-3/WTpooled	1.08265	1
IL12-4/WTpooled	0.88546	0.71
IL1-4/WTpooled	0.94375	0.834
WT/WTpooled	0.86779	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	0.79725	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07767	0.875
DC3000/delta hrp 6h	0.95075	0.95
DC3000/delta hrp 12h	1.16043	1
DC3000/delta hrp 24h	0.9916	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.04544	0.648
DC3000 delta B/DC3000 delta AB	0.94655	0.223

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	1.04018	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99757	1
Var 0h	0.51312	0.421
Var 12h I row2-row1	0.98117	0.948
Var 12h NI row2-row1	0.91291	0.627
Var 36h I row2-row1	0.78828	0.805
Var 36h NI row2-row1	1.05325	0.482
Var 60h I row2-row1	1.29391	0.562
Var 60h NI row2-row1	1.16516	0.904
Time course 0hI-0hNI	1.07052	0.719
Time course 12hI-12hNI	1.04802	0.668
Time course 36hI-36hNI	0.88211	0.187
Time course 60hI-60hNI	0.87128	0.047

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)	1.26266	0.3
transgenic ySAMdc/azygous control (breaker)	1.19634	0.248
transgenic ySAMdc/azygous control (red)	1.71724	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99035	0.534

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.82408	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.1953	1
Manapal/WT (break)	1.45111	0.14
Manapal/WT (red)	N/A	N/A