Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.16.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90843	0.532
27DAP/17DAP	1.23751	0.842
39DAP/27DAP	1.02064	1
41DAP/39DAP	1.10102	0.742
42DAP/41DAP	1.03607	1
43DAP/42DAP	1.0433	1
47DAP/43DAP	1.26809	0.513
52DAP/47DAP	0.84135	0.565
57DAP/52DAP	1.08508	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97078	0.371
17DAP/reference	1.00812	0.717
27DAP/reference	1.02177	0.831
39DAP/reference	0.99501	0.921
41DAP/reference	0.92887	0.154
42DAP/reference	0.92365	0.026
43DAP/reference	0.99696	0.904
47DAP/reference	0.99645	0.674
52DAP/reference	1.05077	0.335
57DAP/reference	1.03083	0.511

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04216	1
27DAP/17DAP	0.80331	0.614
39DAP/27DAP	1.29886	0.275
41DAP/39DAP	1.00387	1
42DAP/41DAP	1.25789	0.032
43DAP/42DAP	1.04408	0.554
47DAP/43DAP	1.02909	0.93
52DAP/47DAP	1.16323	0.539
57DAP/52DAP	1.17959	0.442
57DAP/7DAP	0.73625	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99915	0.682
17DAP/reference	1.15775	0.07
27DAP/reference	1.021	0.974
39DAP/reference	1.01025	1
41DAP/reference	0.96156	0.412
42DAP/reference	1.03287	0.791
43DAP/reference	1.09736	0.537
47DAP/reference	1.15148	0.468
52DAP/reference	1.2637	0.019
57DAP/reference	1.08243	0.468

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02025	0.952
17DAP/reference	0.95016	0.337
27DAP/reference	0.93038	0.282
39DAP/reference	1.00603	1
41DAP/reference	0.95786	0.322
42DAP/reference	1.0254	0.915
43DAP/reference	0.98169	0.646
47DAP/reference	0.913	0.037
52DAP/reference	0.94321	0.187
57DAP/reference	1.0421	0.672

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9164	0.183
17DAP/reference	1.05636	0.585
27DAP/reference	0.96212	0.416
39DAP/reference	0.98574	0.591
41DAP/reference	1.02592	0.984
42DAP/reference	1.06944	0.556
43DAP/reference	0.92471	0.246
47DAP/reference	1.05386	0.443
52DAP/reference	0.95531	0.562
57DAP/reference	1.10563	0.354

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.93287	1
26DAP/20DAP	1.25614	0.374
34DAP/26DAP	0.74904	0.498
51DAP/34DAP	1.11517	0.654
52DAP/51DAP	0.86439	1
53DAP/52DAP	1.31906	0.144
55DAP/53DAP	1.07393	0.869
57DAP/55DAP	1.33211	0.584
62DAP/57DAP	0.91178	0.162
68DAP/62DAP	0.87948	0.579
68DAP/14DAP	0.84528	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.85895	0.087

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.71953	0.055
Immature Eggplant/Mature Eggplant	0.88268	0.594
Ripe Pepper/Ripe Tomato	0.51818	0.224
Mature Eggplant/Ripe Tomato	0.59298	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97089	0.961
1-1-2/M82	1.0364	1
12-2/M82	1.00605
12-4/M82	0.93323	0.619
1-3/M82	0.90017	0.501
2-1-1/M82	1.37553
2-1/M82	1.5055
2-6/M82	0.89474
3-2/M82	N/A	N/A
4-1-1/M82	1.0415
4-1/M82	1.47087
4-3-2/M82	N/A	N/A
4-3/M82	1.06995	1
5-3/M82	0.67737
6-2/M82	0.56797
6-3/M82	0.96394	1
7-1/M82	N/A	N/A
7-2/M82	0.84945
9-3-2/M82	1.39178

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.06823	0.584
IL7-5/WTpooled	0.60014	1
IL7-3/WTpooled	1.12171	0.362
IL12-4/WTpooled	1.30137	0.673
IL1-4/WTpooled	0.78644
WT/WTpooled	0.98358	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	1.37846	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10494	0.774
DC3000/delta hrp 6h	0.94617	0.95
DC3000/delta hrp 12h	1.07216	1
DC3000/delta hrp 24h	0.89487	0.464

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.51449	0.081
DC3000 delta B/DC3000 delta AB	1.07692	0.609

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.84146	0.242
Exp 36h	0.93405	0.879
Exp 60h	1.50053	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99896	1
Var 0h	0.9671	1
Var 12h I row2-row1	1.00462	1
Var 12h NI row2-row1	1.04329	1
Var 36h I row2-row1	0.88281	0.805
Var 36h NI row2-row1	0.51267	0.413
Var 60h I row2-row1	0.86712	0.285
Var 60h NI row2-row1	0.94712	0.932
Time course 0hI-0hNI	1.012	1
Time course 12hI-12hNI	0.96685	0.761
Time course 36hI-36hNI	1.08241	0.513
Time course 60hI-60hNI	1.07153	0.137

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)	1.05384	0.511
transgenic ySAMdc/azygous control (breaker)	1.27338	0.248
transgenic ySAMdc/azygous control (red)	1.00294	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99187	0.459

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.0132	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.94929	1
Manapal/WT (break)	0.94823	1
Manapal/WT (red)	1.10752	1