Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.11.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81068	0.297
27DAP/17DAP	1.17223	0.833
39DAP/27DAP	0.97094	0.733
41DAP/39DAP	0.94862	0.748
42DAP/41DAP	0.9242	1
43DAP/42DAP	0.88963	0.783
47DAP/43DAP	0.68254	0.148
52DAP/47DAP	1.31809	0.403
57DAP/52DAP	1.04571	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97509	0.55
17DAP/reference	0.84615	0.091
27DAP/reference	0.95838	0.581
39DAP/reference	0.85503	0.206
41DAP/reference	0.75293	0.049
42DAP/reference	0.93106	0.145
43DAP/reference	1.00814	1
47DAP/reference	0.96254	0.345
52DAP/reference	0.92253	0.25
57DAP/reference	0.94505	0.248

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11027	0.91
27DAP/17DAP	1.04255	1
39DAP/27DAP	0.94858	0.692
41DAP/39DAP	1.20076	0.484
42DAP/41DAP	0.95939	0.704
43DAP/42DAP	1.04615	0.746
47DAP/43DAP	1.07818	0.88
52DAP/47DAP	0.96688	0.839
57DAP/52DAP	1.4346	0.167
57DAP/7DAP	1.24089	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.2025	0.311
17DAP/reference	1.14819	0.297
27DAP/reference	1.05202	0.804
39DAP/reference	0.94507	0.354
41DAP/reference	0.90935	0.259
42DAP/reference	0.87384	0.032
43DAP/reference	0.93337	0.252
47DAP/reference	0.8788	0.293
52DAP/reference	0.95863	0.332
57DAP/reference	1.07215	0.536

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92054	0.204
17DAP/reference	0.83414	0.143
27DAP/reference	1.07643	1
39DAP/reference	1.10445	1
41DAP/reference	1.44361	0.102
42DAP/reference	1.06425	0.951
43DAP/reference	0.93864	0.423
47DAP/reference	0.9268	0.284
52DAP/reference	1.0883	0.194
57DAP/reference	0.80025	0.194

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05305	1
17DAP/reference	0.87519	0.3
27DAP/reference	1.03626	0.596
39DAP/reference	0.99004	0.693
41DAP/reference	0.93806	0.417
42DAP/reference	1.04269	0.893
43DAP/reference	1.03479	0.923
47DAP/reference	0.92007	0.383
52DAP/reference	0.9053	0.415
57DAP/reference	1.04216	0.867

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.16636	0.966
26DAP/20DAP	1.15618	0.608
34DAP/26DAP	0.98697
51DAP/34DAP	1.85208	0.627
52DAP/51DAP	0.86644	1
53DAP/52DAP	0.95885	0.897
55DAP/53DAP	0.97998	0.807
57DAP/55DAP	1.43567	0.203
62DAP/57DAP	1.0482	1
68DAP/62DAP	0.77922	0.505
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.23847	0.369

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.33573	0.134
Immature Eggplant/Mature Eggplant	1.94007	0.05
Ripe Pepper/Ripe Tomato	0.39463	0.224
Mature Eggplant/Ripe Tomato	0.25466	0.231

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	0.87411
1-3/M82	1.19014
2-1-1/M82	1.38506
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	0.71843
4-3/M82	0.6193	0.396
5-3/M82	1.19023	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.17427
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.25673	0.365
IL2-6/WTpooled	0.76755	0.473
IL7-5/WTpooled	0.83167	1
IL7-3/WTpooled	1.10109	1
IL12-4/WTpooled	1.14206	0.503
IL1-4/WTpooled	1.04616	1
WT/WTpooled	0.95089	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	1.06927	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03468	0.921
DC3000/delta hrp 6h	1.00892	1
DC3000/delta hrp 12h	1.11013	1
DC3000/delta hrp 24h	1.34869	0.136

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.8005
DC3000 delta B/DC3000 delta AB	1.26448

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.9596	1
Exp 36h	1.5431	0.693
Exp 60h	1.24565	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00771	1
Var 0h	0.91867	0.933
Var 12h I row2-row1	1.09772	0.348
Var 12h NI row2-row1	0.94949	0.906
Var 36h I row2-row1	1.04083	1
Var 36h NI row2-row1	0.99278	0.852
Var 60h I row2-row1	0.8555	0.439
Var 60h NI row2-row1	0.94667	1
Time course 0hI-0hNI	0.94299	0.54
Time course 12hI-12hNI	1.23285	0.087
Time course 36hI-36hNI	1.35629	0.006
Time course 60hI-60hNI	1.23666	0.029

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)	0.99425	0.931
transgenic ySAMdc/azygous control (breaker)	0.7452	0.173
transgenic ySAMdc/azygous control (red)	0.92821	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02401	0.854

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.8171	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.9266	1
Manapal/WT (break)	0.70757	0.333
Manapal/WT (red)	0.85831	0.36