Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.16.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80902	0.373
27DAP/17DAP	0.75752	0.471
39DAP/27DAP	0.93782	0.641
41DAP/39DAP	0.85683	0.63
42DAP/41DAP	1.49798	0.941
43DAP/42DAP	1.01092	0.937
47DAP/43DAP	1.44668	0.459
52DAP/47DAP	0.88384	0.565
57DAP/52DAP	0.92478	0.919

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98901	0.645
17DAP/reference	1.13594	0.166
27DAP/reference	0.98458	0.694
39DAP/reference	1.02706	0.734
41DAP/reference	1.08827	0.312
42DAP/reference	0.84396	0.006
43DAP/reference	1.00087	1
47DAP/reference	0.93874	0.224
52DAP/reference	0.78986	0.041
57DAP/reference	0.91914	0.015

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89997	0.323
27DAP/17DAP	1.04653	0.957
39DAP/27DAP	0.76727	0.291
41DAP/39DAP	1.21913	0.294
42DAP/41DAP	0.80516	0.256
43DAP/42DAP	1.18732	0.699
47DAP/43DAP	0.99303	0.93
52DAP/47DAP	0.92884	0.886
57DAP/52DAP	1.0884	0.846
57DAP/7DAP	2.19319	0.204

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.73957	0.078
17DAP/reference	0.73155	0.016
27DAP/reference	1.07484	0.664
39DAP/reference	0.71337	0.056
41DAP/reference	0.81759	0.16
42DAP/reference	0.6045	0.011
43DAP/reference	0.81013	0.072
47DAP/reference	0.82423	0.222
52DAP/reference	0.82776	0.163
57DAP/reference	0.8095	0.048

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08281	0.3
17DAP/reference	1.05307	0.941
27DAP/reference	0.91914	0.249
39DAP/reference	0.91889	0.085
41DAP/reference	0.84614	0.141
42DAP/reference	1.06072	0.697
43DAP/reference	1.30473	0.033
47DAP/reference	0.91609	0.141
52DAP/reference	0.99052	0.576
57DAP/reference	0.91056	0.243

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95078	0.422
17DAP/reference	0.93503	0.47
27DAP/reference	0.95198	0.442
39DAP/reference	0.99213	0.693
41DAP/reference	1.01469	1
42DAP/reference	0.79888	0.134
43DAP/reference	0.77511	0.023
47DAP/reference	0.85831	0.045
52DAP/reference	0.76921	0.208
57DAP/reference	0.77808	0.053

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.91374	1
26DAP/20DAP	0.61063	0.512
34DAP/26DAP	1.75939	0.126
51DAP/34DAP	1.02621	0.98
52DAP/51DAP	1.49757	0.708
53DAP/52DAP	1.1061	0.688
55DAP/53DAP	0.82651	0.5
57DAP/55DAP	1.33016	0.407
62DAP/57DAP	1.04249	0.902
68DAP/62DAP	1.36404	0.936
68DAP/14DAP	0.83181	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.95397	0.635

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	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01908	0.921
DC3000/delta hrp 6h	1.0124	0.95
DC3000/delta hrp 12h	0.87448	1
DC3000/delta hrp 24h	0.66852	0.124

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	0.52251	0.265
Exp 36h	0.7414	0.41
Exp 60h	0.75373	0.249

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05623	1
Var 0h	1.04816	0.936
Var 12h I row2-row1	4.26205	0.654
Var 12h NI row2-row1	1.4572	1
Var 36h I row2-row1	0.84644	0.438
Var 36h NI row2-row1	0.3973	0.258
Var 60h I row2-row1	1.08715	1
Var 60h NI row2-row1	1.07649	0.904
Time course 0hI-0hNI	0.72722	0.051
Time course 12hI-12hNI	0.94961	0.632
Time course 36hI-36hNI	1.29463	0.569
Time course 60hI-60hNI	0.40481	0.007

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)	1.72118	1
transgenic ySAMdc/azygous control (red)	1.18504	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9427	0.101

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.412	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.49692	0.307
Manapal/WT (break)	1.31037	0.381
Manapal/WT (red)	N/A	N/A