Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.20.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95855	0.689
27DAP/17DAP	1.12595	0.859
39DAP/27DAP	1.09238	0.922
41DAP/39DAP	1.12129	0.696
42DAP/41DAP	1.0479	1
43DAP/42DAP	0.97628	0.925
47DAP/43DAP	0.97761	0.868
52DAP/47DAP	1.11129	0.869
57DAP/52DAP	0.95138	0.938

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	N/A	N/A
17DAP/reference	0.54088	0.033
27DAP/reference	N/A	N/A
39DAP/reference	1.0769
41DAP/reference	1.64664
42DAP/reference	1.25187	0.731
43DAP/reference	0.52894	0.024
47DAP/reference	0.92492	0.322
52DAP/reference	0.57005	0.043
57DAP/reference	0.69464

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90298	0.496
27DAP/17DAP	0.78149	0.684
39DAP/27DAP	1.33451	0.27
41DAP/39DAP	0.79144	0.547
42DAP/41DAP	1.22116	0.708
43DAP/42DAP	1.34594	0.446
47DAP/43DAP	1.24327	0.593
52DAP/47DAP	1.08431	0.915
57DAP/52DAP	0.97325	0.75
57DAP/7DAP	0.98643	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98871	0.613
17DAP/reference	0.95958	0.044
27DAP/reference	0.9324	0.031
39DAP/reference	1.09625	0.114
41DAP/reference	1.12438	0.117
42DAP/reference	1.15004	0.011
43DAP/reference	1.03917	0.537
47DAP/reference	1.13099	0.152
52DAP/reference	1.07543	0.286
57DAP/reference	1.10573	0.076

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98203	0.786
17DAP/reference	1.15395	0.543
27DAP/reference	0.81378	0.381
39DAP/reference	0.98871	0.586
41DAP/reference	0.96093	0.25
42DAP/reference	0.96229	0.289
43DAP/reference	0.91994	0.243
47DAP/reference	0.98072	0.446
52DAP/reference	0.97185	0.302
57DAP/reference	1.00201	0.789

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9232	0.026
17DAP/reference	0.94509	0.281
27DAP/reference	0.97648	0.319
39DAP/reference	0.95104	0.122
41DAP/reference	0.96996	0.371
42DAP/reference	0.94437	0.172
43DAP/reference	0.93974	0.246
47DAP/reference	0.91921	0.132
52DAP/reference	0.91577	0.268
57DAP/reference	0.83919	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97402	1
26DAP/20DAP	1.82145	0.098
34DAP/26DAP	1.26309	0.819
51DAP/34DAP	0.8188	0.606
52DAP/51DAP	0.75556	1
53DAP/52DAP	0.98684	0.817
55DAP/53DAP	1.22407	0.876
57DAP/55DAP	0.86285	0.468
62DAP/57DAP	1.30621	0.678
68DAP/62DAP	1.15572	0.831
68DAP/14DAP	1.19766	0.453

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.39781	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.51521	0.102
Mature Green Tomato/Ripe Tomato	1.83566	0.016
Immature Eggplant/Mature Eggplant	1.78268	0.05
Ripe Pepper/Ripe Tomato	1.39191	1
Mature Eggplant/Ripe Tomato	1.64945	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98938	0.961
1-1-2/M82	1.00127	1
12-2/M82	0.95144	0.955
12-4/M82	1.05749	1
1-3/M82	1.05176	1
2-1-1/M82	1.13268
2-1/M82	0.87188	0.74
2-6/M82	0.98789	1
3-2/M82	1.09268
4-1-1/M82	0.93157	1
4-1/M82	0.84914	0.737
4-3-2/M82	0.96588	1
4-3/M82	1.04886	1
5-3/M82	0.99098	0.642
6-2/M82	0.95999	1
6-3/M82	1.01645	1
7-1/M82	N/A	N/A
7-2/M82	1.00047	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.94865	0.321
IL2-6/WTpooled	0.78197	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.29151	1
IL12-4/WTpooled	1.47133	0.522
IL1-4/WTpooled	0.76031	0.444
WT/WTpooled	0.93254	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	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	0.99676	1
DC3000/delta hrp 6h	1.15039	1
DC3000/delta hrp 12h	0.79705	1
DC3000/delta hrp 24h	0.99891

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	1.37281	1
Exp 36h	1.48561	0.409
Exp 60h	1.57089	0.226

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

hybridization	ratio	FDR (corrected p value)
self-self	0.90474	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.82309	0.565
Var 12h NI row2-row1	0.87416	0.627
Var 36h I row2-row1	1.21752	1
Var 36h NI row2-row1	1.15828	1
Var 60h I row2-row1	0.6072	0.292
Var 60h NI row2-row1	0.85356	0.977
Time course 0hI-0hNI	1.20056	0.799
Time course 12hI-12hNI	1.23065	0.475
Time course 36hI-36hNI	3.02084	0.006
Time course 60hI-60hNI	18.9412	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)	0.76492	0.301
transgenic ySAMdc/azygous control (breaker)	0.62583	0.139
transgenic ySAMdc/azygous control (red)	0.99234	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05532	0.13

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.84489	1
Manapal/WT (break)	0.91901	1
Manapal/WT (red)	0.7686	0.181