Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.18.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00424	0.858
27DAP/17DAP	0.57164	0.128
39DAP/27DAP	1.21636	0.675
41DAP/39DAP	1.08221	0.447
42DAP/41DAP	0.8242	0.774
43DAP/42DAP	1.00795	0.937
47DAP/43DAP	1.02505	0.913
52DAP/47DAP	1.45654	0.691
57DAP/52DAP	1.14722	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03188	0.928
17DAP/reference	1.02814	0.717
27DAP/reference	0.84414	0.061
39DAP/reference	0.94485	0.381
41DAP/reference	0.88822	0.201
42DAP/reference	0.8256	0.05
43DAP/reference	0.92844	0.273
47DAP/reference	0.93163	0.148
52DAP/reference	0.86862	0.086
57DAP/reference	1.03522	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91164	0.496
27DAP/17DAP	1.09929	0.842
39DAP/27DAP	0.91362	0.563
41DAP/39DAP	0.86411	0.512
42DAP/41DAP	1.0252	0.884
43DAP/42DAP	1.08497	0.788
47DAP/43DAP	1.19956	0.822
52DAP/47DAP	0.74011	0.202
57DAP/52DAP	0.74275	0.505
57DAP/7DAP	0.94729	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87229	0.183
17DAP/reference	0.83706	0.108
27DAP/reference	0.84269	0.01
39DAP/reference	0.8299	0.027
41DAP/reference	0.86085	0.107
42DAP/reference	0.76315	0.027
43DAP/reference	0.7296	0.016
47DAP/reference	0.85465	0.168
52DAP/reference	0.80538	0.04
57DAP/reference	0.89314	0.08

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02939	0.884
17DAP/reference	0.8435	0.062
27DAP/reference	0.85686	0.155
39DAP/reference	0.82399	0.017
41DAP/reference	0.91088	0.103
42DAP/reference	0.95565	0.392
43DAP/reference	0.96022	0.494
47DAP/reference	0.95588	0.41
52DAP/reference	0.93438	0.259
57DAP/reference	0.76943	0.04

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00424	0.804
17DAP/reference	0.93146	0.407
27DAP/reference	0.91996	0.23
39DAP/reference	1.01064	0.889
41DAP/reference	0.99696	0.826
42DAP/reference	0.81956	0.017
43DAP/reference	0.88519	0.116
47DAP/reference	0.91152	0.215
52DAP/reference	0.99537	0.518
57DAP/reference	0.94599	0.416

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09237	1
26DAP/20DAP	1.14101	0.647
34DAP/26DAP	1.76953	0.19
51DAP/34DAP	1.11868
52DAP/51DAP	0.91275	1
53DAP/52DAP	0.95783	0.844
55DAP/53DAP	1.36352	0.537
57DAP/55DAP	0.87714	0.437
62DAP/57DAP	0.95647	0.994
68DAP/62DAP	1.3	0.984
68DAP/14DAP	1.18669	0.521

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.00704	0.855

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
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	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	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	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.98395	1
IL7-5/WTpooled	1.10302
IL7-3/WTpooled	0.86288	1
IL12-4/WTpooled	1.03916	0.557
IL1-4/WTpooled	0.91343	0.422
WT/WTpooled	1.30558	0.686

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	1.56031	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93377
DC3000/delta hrp 6h	1.38367	1
DC3000/delta hrp 12h	1.06271	1
DC3000/delta hrp 24h	1.26036	0.383

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	1.19507	1
Exp 36h	1.02559	1
Exp 60h	1.07003	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99509	1
Var 0h	1.05195	1
Var 12h I row2-row1	0.95148	0.77
Var 12h NI row2-row1	1.06705	1
Var 36h I row2-row1	1.23023	1
Var 36h NI row2-row1	0.75403	0.743
Var 60h I row2-row1	1.07952	1
Var 60h NI row2-row1	0.66189	0.932
Time course 0hI-0hNI	1.22144	0.719
Time course 12hI-12hNI	1.41581	0.155
Time course 36hI-36hNI	1.67153	0.019
Time course 60hI-60hNI	1.90546	0.008

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)	1.10294	0.326
transgenic ySAMdc/azygous control (breaker)	1.12119	1
transgenic ySAMdc/azygous control (red)	1.07736	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.002	0.909

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.87142	0.241

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)	1.66046	0.381
Manapal/WT (red)	N/A	N/A