Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.20.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04583	0.893
27DAP/17DAP	0.87345	0.72
39DAP/27DAP	1.18858	0.82
41DAP/39DAP	1.07146	0.728
42DAP/41DAP	1.47534	1
43DAP/42DAP	0.96089	0.91
47DAP/43DAP	1.64102	0.412
52DAP/47DAP	1.31343	0.67
57DAP/52DAP	2.0746	0.944

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01023	1
17DAP/reference	0.96513	0.503
27DAP/reference	1.00928	0.909
39DAP/reference	1.00906	0.771
41DAP/reference	0.93454	0.341
42DAP/reference	0.96361	0.129
43DAP/reference	0.98864	0.763
47DAP/reference	0.99468	0.602
52DAP/reference	1.03196	0.749
57DAP/reference	0.9099	0.074

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97679	0.679
27DAP/17DAP	1.00242	1
39DAP/27DAP	1.03837	0.615
41DAP/39DAP	1.03913	0.837
42DAP/41DAP	0.98315	0.803
43DAP/42DAP	0.94593	0.181
47DAP/43DAP	0.97653	0.877
52DAP/47DAP	0.97441	0.884
57DAP/52DAP	1.03691	0.763
57DAP/7DAP	1.02534	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.70641	0.033
17DAP/reference	0.84679	0.064
27DAP/reference	1.04872	1
39DAP/reference	1.07344	1
41DAP/reference	0.93372	0.122
42DAP/reference	1.1896	0.233
43DAP/reference	0.98034	0.502
47DAP/reference	0.97641	0.671
52DAP/reference	0.96014	0.398
57DAP/reference	1.14439	0.158

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04287	0.704
17DAP/reference	0.97504	0.41
27DAP/reference	0.89542	0.173
39DAP/reference	0.9133	0.108
41DAP/reference	0.96509	0.403
42DAP/reference	0.95311	0.321
43DAP/reference	1.06183	0.575
47DAP/reference	0.95573	0.107
52DAP/reference	0.91766	0.047
57DAP/reference	0.93484	0.05

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93617	0.29
17DAP/reference	0.99969	0.839
27DAP/reference	0.97814	0.566
39DAP/reference	1.03457	0.578
41DAP/reference	0.98929	0.682
42DAP/reference	0.87396	0.134
43DAP/reference	0.86624	0.11
47DAP/reference	0.98346	0.538
52DAP/reference	0.69949	0.114
57DAP/reference	0.7704	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98525	1
26DAP/20DAP	0.94581	0.228
34DAP/26DAP	0.97559	0.945
51DAP/34DAP	0.92281	0.281
52DAP/51DAP	1.03188	0.722
53DAP/52DAP	1.0924	0.398
55DAP/53DAP	1.0373	0.547
57DAP/55DAP	1.01966	0.915
62DAP/57DAP	1.0189	1
68DAP/62DAP	1.07907	0.609
68DAP/14DAP	1.31377	0.236

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.00356	0.855

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.80164	0.309
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.53542	0.051
Ripe Pepper/Ripe Tomato	0.87095	1
Mature Eggplant/Ripe Tomato	1.46157	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91942	0.934
1-1-2/M82	0.93783	1
12-2/M82	0.95217	0.955
12-4/M82	1.00537
1-3/M82	0.95763	1
2-1-1/M82	1.09521	0.403
2-1/M82	1.28084	1
2-6/M82	0.97014	1
3-2/M82	0.96761
4-1-1/M82	1.08237	1
4-1/M82	0.93969
4-3-2/M82	1.09461
4-3/M82	1.01794	1
5-3/M82	0.98599	1
6-2/M82	1.03196	1
6-3/M82	1.00704	1
7-1/M82	0.95028	0.476
7-2/M82	0.9971	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.90457	0.321
IL2-6/WTpooled	1.02229	0.788
IL7-5/WTpooled	1.11569	0.65
IL7-3/WTpooled	1.04933	1
IL12-4/WTpooled	1.08952	0.525
IL1-4/WTpooled	1.00338	1
WT/WTpooled	0.95855	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	1.23082	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.14585	0.921
DC3000/delta hrp 6h	1.04389	1
DC3000/delta hrp 12h	1.1035	1
DC3000/delta hrp 24h	1.05751	0.383

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.1088	0.16
DC3000 delta B/DC3000 delta AB	1.04166	0.558

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06367	1
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0043	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.18314	0.198
Var 12h NI row2-row1	1.06028	1
Var 36h I row2-row1	1.07709	1
Var 36h NI row2-row1	0.85201	0.522
Var 60h I row2-row1	1.14381	1
Var 60h NI row2-row1	1.14496	0.904
Time course 0hI-0hNI	1.00121	1
Time course 12hI-12hNI	0.99267	1
Time course 36hI-36hNI	0.91511	0.096
Time course 60hI-60hNI	1.19706	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)	1.13575	0.272
transgenic ySAMdc/azygous control (breaker)	0.44694	0.119
transgenic ySAMdc/azygous control (red)	1.18664	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98393	0.418

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.90074	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.6829	0.172
Manapal/WT (break)	0.96546	1
Manapal/WT (red)	0.91437	0.36