Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.19.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06918	0.964
27DAP/17DAP	0.96933	0.939
39DAP/27DAP	1.00359	0.798
41DAP/39DAP	1.01831	0.839
42DAP/41DAP	0.86386	1
43DAP/42DAP	1.04113	1
47DAP/43DAP	1.05446	0.949
52DAP/47DAP	1.10603	0.941
57DAP/52DAP	0.83482	0.849

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04469	0.71
17DAP/reference	1.01213	0.675
27DAP/reference	0.98001	0.642
39DAP/reference	1.05252	0.153
41DAP/reference	1.02607	0.759
42DAP/reference	1.10678	0.068
43DAP/reference	0.97387	0.653
47DAP/reference	1.01308	0.773
52DAP/reference	1.07562	0.158
57DAP/reference	0.96001	0.377

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03815	0.619
27DAP/17DAP	0.95851	0.748
39DAP/27DAP	1.01346	0.758
41DAP/39DAP	1.00126	1
42DAP/41DAP	1.01447	0.961
43DAP/42DAP	1.00649	1
47DAP/43DAP	1.02544	0.897
52DAP/47DAP	1.02067	0.927
57DAP/52DAP	1.00244	1
57DAP/7DAP	1.03141	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9901	0.682
17DAP/reference	0.92946	0.22
27DAP/reference	0.89511	0.264
39DAP/reference	0.99193	0.64
41DAP/reference	1.01807	1
42DAP/reference	0.97551	0.482
43DAP/reference	1.18647	0.157
47DAP/reference	0.83829	0.222
52DAP/reference	0.91938	0.163
57DAP/reference	1.07489	0.654

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08689	0.325
17DAP/reference	1.04506	0.543
27DAP/reference	0.97338	0.501
39DAP/reference	0.89873	0.122
41DAP/reference	0.998	0.666
42DAP/reference	1.06241	0.843
43DAP/reference	1.15456	0.146
47DAP/reference	1.02851	0.867
52DAP/reference	1.06629	0.085
57DAP/reference	1.30305	0.016

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81203	0.135
17DAP/reference	0.92935	0.3
27DAP/reference	1.05121	0.621
39DAP/reference	0.93757	0.393
41DAP/reference	0.95135	0.56
42DAP/reference	0.82504	0.059
43DAP/reference	0.97172	0.59
47DAP/reference	1.00273	0.754
52DAP/reference	0.86409	0.342
57DAP/reference	1.03509	0.842

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06007	0.966
26DAP/20DAP	0.97872	1
34DAP/26DAP	0.92	0.702
51DAP/34DAP	1.06866	0.613
52DAP/51DAP	1.03668	0.708
53DAP/52DAP	1.02648	0.797
55DAP/53DAP	1.04879	0.645
57DAP/55DAP	0.97632	0.867
62DAP/57DAP	0.92278	0.871
68DAP/62DAP	1.14931	0.515
68DAP/14DAP	0.90789	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.07516	0.092

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	0.23967	0.224
Mature Eggplant/Ripe Tomato	0.20144

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	0.57258	0.243
IL2-6/WTpooled	0.9245	1
IL7-5/WTpooled	1.95993	1
IL7-3/WTpooled	0.89882	1
IL12-4/WTpooled	1.31439	0.516
IL1-4/WTpooled	1.07504	1
WT/WTpooled	1.03329	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	0.82931	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.40142
DC3000/delta hrp 6h	0.89629	0.95
DC3000/delta hrp 12h	1.1551	1
DC3000/delta hrp 24h	1.03144

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.99486	1
DC3000 delta B/DC3000 delta AB	0.94532	0.21

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.65112	1
Exp 36h	1.69301	0.693
Exp 60h	1.10612	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0089	1
Var 0h	0.95142	1
Var 12h I row2-row1	0.97681	0.705
Var 12h NI row2-row1	1.00861	1
Var 36h I row2-row1	1.05425	1
Var 36h NI row2-row1	0.99293	0.852
Var 60h I row2-row1	1.08637	0.543
Var 60h NI row2-row1	0.99611	1
Time course 0hI-0hNI	1.00239	1
Time course 12hI-12hNI	0.96542	0.592
Time course 36hI-36hNI	0.94223	0.28
Time course 60hI-60hNI	0.65991	0.015

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)	1.09616	0.326
transgenic ySAMdc/azygous control (breaker)	0.6048	0.125
transgenic ySAMdc/azygous control (red)	1.15241	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99545	0.784

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.34504	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.01026	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.99161	1