Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.13.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86086	0.436
27DAP/17DAP	1.51455	0.581
39DAP/27DAP	1.16255	0.956
41DAP/39DAP	0.7467	0.182
42DAP/41DAP	1.1905	0.825
43DAP/42DAP	0.71116	0.705
47DAP/43DAP	0.92055	0.533
52DAP/47DAP	1.3312	0.549
57DAP/52DAP	0.93303	0.926

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07902	0.735
17DAP/reference	1.05819	0.492
27DAP/reference	1.04412	0.648
39DAP/reference	1.12258	0.326
41DAP/reference	1.10944	0.421
42DAP/reference	1.02452	1
43DAP/reference	1.03324	0.866
47DAP/reference	1.03031	0.646
52DAP/reference	1.00709	0.768
57DAP/reference	0.90127	0.074

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.77055	0.057
27DAP/17DAP	0.96305	0.724
39DAP/27DAP	1.34534	0.121
41DAP/39DAP	2.12342	0.014
42DAP/41DAP	0.7249	0.024
43DAP/42DAP	1.02429	0.788
47DAP/43DAP	1.21098	0.339
52DAP/47DAP	1.04828	0.851
57DAP/52DAP	1.04406	0.813
57DAP/7DAP	0.95867	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30929	0.056
17DAP/reference	1.47822	0.006
27DAP/reference	1.2212	0.049
39DAP/reference	1.51978	0.006
41DAP/reference	1.53186	0.009
42DAP/reference	1.36646	0.024
43DAP/reference	1.5396	0.018
47DAP/reference	1.39266	0.019
52DAP/reference	1.42318	0.011
57DAP/reference	1.50142	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23	0.077
17DAP/reference	1.23779	0.012
27DAP/reference	0.98458	0.576
39DAP/reference	0.94595	0.33
41DAP/reference	1.02314	1
42DAP/reference	1.09547	0.5
43DAP/reference	1.48	0.159
47DAP/reference	1.37726	0.012
52DAP/reference	1.0311	0.988
57DAP/reference	1.29418	0.083

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25904	0.031
17DAP/reference	1.16659	0.431
27DAP/reference	1.42529	0.02
39DAP/reference	1.40102	0.007
41DAP/reference	1.34778	0.018
42DAP/reference	1.14391	0.246
43DAP/reference	1.09875	0.79
47DAP/reference	1.05715	0.519
52DAP/reference	1.39326	0.056
57DAP/reference	1.1938	0.354

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.43673	0.786
26DAP/20DAP	0.80668	0.512
34DAP/26DAP	1.08911	1
51DAP/34DAP	1.01015	0.946
52DAP/51DAP	0.95063	1
53DAP/52DAP	0.95018	0.649
55DAP/53DAP	1.01405	0.989
57DAP/55DAP	1.03218	1
62DAP/57DAP	0.92794	0.681
68DAP/62DAP	0.97234	0.81
68DAP/14DAP	0.75307	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.79998	0.037

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.46088
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.07734	0.224
Mature Eggplant/Ripe Tomato	0.17024	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.78578
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	1.29424
3-2/M82	0.97302
4-1-1/M82	3.75148
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	0.85257	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	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	1.27649	0.365
IL2-6/WTpooled	0.88574	0.473
IL7-5/WTpooled	0.78072
IL7-3/WTpooled	0.96777	1
IL12-4/WTpooled	0.86266	0.71
IL1-4/WTpooled	0.91437	0.834
WT/WTpooled	1.02945	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	1.54912	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.9473	1
DC3000/delta hrp 24h	1.62056	0.118

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.69687	0.055
DC3000 delta B/DC3000 delta AB	1.53659	0.081

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.87411	1
Exp 36h	2.71429	0.326
Exp 60h	2.77639	0.227

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0604	1
Var 0h	0.86464	0.259
Var 12h I row2-row1	0.7879	0.514
Var 12h NI row2-row1	1.14673	0.34
Var 36h I row2-row1	1.64797	0.41
Var 36h NI row2-row1	0.74088	0.522
Var 60h I row2-row1	1.27257	0.543
Var 60h NI row2-row1	0.89989	0.572
Time course 0hI-0hNI	0.99277	1
Time course 12hI-12hNI	0.93612	0.675
Time course 36hI-36hNI	4.98734	0.004
Time course 60hI-60hNI	4.22373	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)	3.15858	0.511
transgenic ySAMdc/azygous control (breaker)	0.48346	0.122
transgenic ySAMdc/azygous control (red)	1.37135	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99619	0.806

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.40238	0.238

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)	0.85594	1
Manapal/WT (red)	N/A	N/A