Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.18.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07534	0.697
27DAP/17DAP	1.71324	0.688
39DAP/27DAP	1.72739	0.38
41DAP/39DAP	0.76894	0.34
42DAP/41DAP	0.99347	1
43DAP/42DAP	0.77121	0.705
47DAP/43DAP	1.10199	0.943
52DAP/47DAP	1.23442	0.78
57DAP/52DAP	1.30439	0.963

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86328	0.103
17DAP/reference	1.06983	0.178
27DAP/reference	0.98701	0.725
39DAP/reference	1.03335	0.224
41DAP/reference	1.08782	0.221
42DAP/reference	0.84324	0.009
43DAP/reference	1.0187	0.982
47DAP/reference	0.84778	0.011
52DAP/reference	0.80877	0.102
57DAP/reference	0.79158	0.039

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04597	0.65
27DAP/17DAP	1.06593	0.928
39DAP/27DAP	1.12169	0.383
41DAP/39DAP	1.05928	0.921
42DAP/41DAP	0.99699	0.803
43DAP/42DAP	1.31178	0.585
47DAP/43DAP	0.94976	0.722
52DAP/47DAP	1.04556	0.892
57DAP/52DAP	1.12675	0.5
57DAP/7DAP	1.0912	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.72839	0.067
17DAP/reference	0.79286	0.015
27DAP/reference	0.73352	0.01
39DAP/reference	0.72919	0.011
41DAP/reference	0.75311	0.036
42DAP/reference	0.68468	0.01
43DAP/reference	0.67877	0.011
47DAP/reference	0.80483	0.128
52DAP/reference	0.74449	0.04
57DAP/reference	0.74476	0.012

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12248	0.443
17DAP/reference	1.07724	0.584
27DAP/reference	0.84613	0.167
39DAP/reference	0.86061	0.159
41DAP/reference	0.7564	0.032
42DAP/reference	0.83308	0.037
43DAP/reference	1.23186	0.211
47DAP/reference	0.99323	0.66
52DAP/reference	0.94452	0.203
57DAP/reference	1.33043	0.094

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82061	0.104
17DAP/reference	0.99841	0.778
27DAP/reference	0.721	0.035
39DAP/reference	0.76051	0.023
41DAP/reference	0.83975	0.024
42DAP/reference	0.77714	0.019
43DAP/reference	0.70712	0.044
47DAP/reference	1.03597	0.994
52DAP/reference	0.75061	0.15
57DAP/reference	0.50156	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96979	1
26DAP/20DAP	0.80803	0.512
34DAP/26DAP	1.17535	0.304
51DAP/34DAP	0.96038	0.824
52DAP/51DAP	1.2301	0.377
53DAP/52DAP	0.91646	0.64
55DAP/53DAP	1.24643	0.048
57DAP/55DAP	1.05377	0.97
62DAP/57DAP	1.1726	0.622
68DAP/62DAP	0.84553	0.211
68DAP/14DAP	0.74317	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.04298	1

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	0.7238	1
Mature Eggplant/Ripe Tomato	1.13509

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97775	0.961
1-1-2/M82	1.09408
12-2/M82	1.16148
12-4/M82	1.1536	0.694
1-3/M82	0.79905	0.378
2-1-1/M82	1.12737	0.764
2-1/M82	N/A	N/A
2-6/M82	1.16742	0.505
3-2/M82	0.74996
4-1-1/M82	1.21939	1
4-1/M82	N/A	N/A
4-3-2/M82	0.91716
4-3/M82	0.83381	0.611
5-3/M82	0.95642	1
6-2/M82	0.94385
6-3/M82	1.02056	1
7-1/M82	N/A	N/A
7-2/M82	1.03263	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.00061	1
IL2-6/WTpooled	0.82117
IL7-5/WTpooled	1.13034	1
IL7-3/WTpooled	0.9328	0.294
IL12-4/WTpooled	1.16426	0.646
IL1-4/WTpooled	0.94218	0.834
WT/WTpooled	0.93042	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	1.03614	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0511	0.894
DC3000/delta hrp 6h	1.39556	1
DC3000/delta hrp 12h	1.297	1
DC3000/delta hrp 24h	1.0842	0.411

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	N/A	N/A
Exp 36h	1.14778	1
Exp 60h	1.31972	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98724	1
Var 0h	1.14764	0.98
Var 12h I row2-row1	0.99767	1
Var 12h NI row2-row1	0.7997	0.443
Var 36h I row2-row1	0.80356	0.805
Var 36h NI row2-row1	0.63233	0.791
Var 60h I row2-row1	1.12333	0.543
Var 60h NI row2-row1	1.29522	0.904
Time course 0hI-0hNI	1.09585	0.603
Time course 12hI-12hNI	1.04867	0.786
Time course 36hI-36hNI	0.98019	0.58
Time course 60hI-60hNI	1.07589	0.359

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)	1.00085	1
transgenic ySAMdc/azygous control (breaker)	0.95172	0.49
transgenic ySAMdc/azygous control (red)	0.95082	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97526	0.263

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.97388	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.80207	0.172
Manapal/WT (break)	0.93982	1
Manapal/WT (red)	0.70726	0.181