Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.1.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9627	0.743
27DAP/17DAP	1.13049	0.872
39DAP/27DAP	1.99722	0.048
41DAP/39DAP	1.66476	0.22
42DAP/41DAP	2.71785	0.018
43DAP/42DAP	1.77826	0.595
47DAP/43DAP	1.63312	0.415
52DAP/47DAP	0.64723	0.147
57DAP/52DAP	1.44986	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31468	0.46
17DAP/reference	0.78563	0.05
27DAP/reference	0.9901	0.797
39DAP/reference	0.86749	0.527
41DAP/reference	1.00369	0.814
42DAP/reference	1.28244	0.812
43DAP/reference	1.00393	0.942
47DAP/reference	1.21588	0.093
52DAP/reference	1.51446	0.065
57DAP/reference	1.55769	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04129	0.774
27DAP/17DAP	0.96474	0.724
39DAP/27DAP	0.9514	0.66
41DAP/39DAP	1.11003	1
42DAP/41DAP	1.72935	0.004
43DAP/42DAP	2.3319	0.015
47DAP/43DAP	1.05439	0.92
52DAP/47DAP	0.99202	0.907
57DAP/52DAP	0.80132	0.324
57DAP/7DAP	0.89553	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.3583	0.399
17DAP/reference	0.89504	0.338
27DAP/reference	1.03016	0.8
39DAP/reference	1.00672	1
41DAP/reference	0.81197	0.023
42DAP/reference	0.94057	0.371
43DAP/reference	1.05206	1
47DAP/reference	0.94704	0.504
52DAP/reference	0.80181	0.163
57DAP/reference	1.06655	0.719

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95085	0.688
17DAP/reference	1.56362	0.385
27DAP/reference	0.79114	0.067
39DAP/reference	0.89899	0.265
41DAP/reference	1.53063	0.573
42DAP/reference	1.19996	0.317
43DAP/reference	1.08913	1
47DAP/reference	1.09341	0.527
52DAP/reference	1.13537	0.559
57DAP/reference	1.07267	0.789

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91208	0.455
17DAP/reference	1.43563	0.757
27DAP/reference	1.83031
39DAP/reference	N/A	N/A
41DAP/reference	1.03906	0.425
42DAP/reference	1.05002	0.979
43DAP/reference	1.21241	0.396
47DAP/reference	1.02651	0.646
52DAP/reference	1.04141	0.888
57DAP/reference	0.95194	0.516

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.20376	0.966
26DAP/20DAP	1.31629	0.493
34DAP/26DAP	1.09957	1
51DAP/34DAP	0.79894	0.127
52DAP/51DAP	1.55388	0.055
53DAP/52DAP	1.03125	0.895
55DAP/53DAP	1.42707	0.058
57DAP/55DAP	0.88771	0.539
62DAP/57DAP	1.26053	0.935
68DAP/62DAP	1.54311
68DAP/14DAP	0.87215	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.02523	0.033

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.13854	0.017
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.15969
Mature Eggplant/Ripe Tomato	0.11281	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.29769	0.877
1-1-2/M82	0.98099	1
12-2/M82	1.01348	1
12-4/M82	1.33726	1
1-3/M82	1.16566	0.479
2-1-1/M82	0.94007	0.565
2-1/M82	0.83249	0.519
2-6/M82	1.04561	0.505
3-2/M82	0.37259	0.752
4-1-1/M82	1.28772	1
4-1/M82	1.95966	1
4-3-2/M82	1.34359	1
4-3/M82	1.04239	1
5-3/M82	0.96802	1
6-2/M82	1.02853	1
6-3/M82	0.96899	1
7-1/M82	0.99361	1
7-2/M82	1.03739	1
9-3-2/M82	1.638	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.71408	0.243
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.03947	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.04975	1
WT/WTpooled	N/A	N/A

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	0.89748	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.38966	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.64041
DC3000/delta hrp 24h	1.03348	0.743

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.79383	0.597
DC3000 delta B/DC3000 delta AB	0.85337	0.129

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	1.02346	1
Var 0h	0.61874	0.255
Var 12h I row2-row1	0.92328	0.627
Var 12h NI row2-row1	0.9239	0.627
Var 36h I row2-row1	1.24104	0.908
Var 36h NI row2-row1	1.22345	1
Var 60h I row2-row1	0.98981	0.952
Var 60h NI row2-row1	1.24561	0.904
Time course 0hI-0hNI	0.90266	0.319
Time course 12hI-12hNI	0.88557	0.287
Time course 36hI-36hNI	0.8982	0.119
Time course 60hI-60hNI	0.33302	0.005

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	0.8244	1
transgenic ySAMdc/azygous control (red)	0.81696	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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)	1.90334	0.142