Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.15.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80398	0.182
27DAP/17DAP	1.17848	0.849
39DAP/27DAP	1.15944	0.553
41DAP/39DAP	1.05761	0.715
42DAP/41DAP	1.15618	0.825
43DAP/42DAP	0.88281	0.761
47DAP/43DAP	1.24294	0.702
52DAP/47DAP	1.42902	0.605
57DAP/52DAP	0.97923	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97321	0.562
17DAP/reference	0.97424	0.597
27DAP/reference	1.02747	0.623
39DAP/reference	0.96814	0.638
41DAP/reference	0.95137	0.434
42DAP/reference	0.96799	0.169
43DAP/reference	0.95194	0.234
47DAP/reference	0.97127	0.127
52DAP/reference	1.01123	0.749
57DAP/reference	1.09878	0.079

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95992	0.578
27DAP/17DAP	1.01217	0.98
39DAP/27DAP	0.95491	0.703
41DAP/39DAP	1.00792	1
42DAP/41DAP	0.97691	0.772
43DAP/42DAP	0.92581	0.246
47DAP/43DAP	0.99348	0.983
52DAP/47DAP	0.94403	0.719
57DAP/52DAP	0.90097	0.289
57DAP/7DAP	0.78435	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03079	0.705
17DAP/reference	1.04246	0.017
27DAP/reference	1.0013	1
39DAP/reference	1.00264	1
41DAP/reference	1.00212	0.848
42DAP/reference	0.92226	0.371
43DAP/reference	1.00625	1
47DAP/reference	0.99688	1
52DAP/reference	1.05333	0.092
57DAP/reference	1.01948	0.41

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.943	0.362
17DAP/reference	1.01589	0.941
27DAP/reference	0.98853	0.554
39DAP/reference	0.94357	0.208
41DAP/reference	0.94361	0.256
42DAP/reference	0.92258	0.392
43DAP/reference	0.93634	0.292
47DAP/reference	1.02165	0.544
52DAP/reference	0.90776	0.016
57DAP/reference	0.86928	0.024

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07737	0.377
17DAP/reference	1.0466	0.215
27DAP/reference	0.98374	0.416
39DAP/reference	1.00775	1
41DAP/reference	0.97772	0.618
42DAP/reference	1.05512	0.612
43DAP/reference	1.012	1
47DAP/reference	0.87838	0.174
52DAP/reference	0.95802	0.405
57DAP/reference	1.29775	0.077

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97491	1
26DAP/20DAP	0.94447	1
34DAP/26DAP	0.95309	0.879
51DAP/34DAP	0.91994	0.328
52DAP/51DAP	1.08068	0.534
53DAP/52DAP	0.99833	0.978
55DAP/53DAP	1.02179	0.982
57DAP/55DAP	1.04792	1
62DAP/57DAP	0.99978	1
68DAP/62DAP	0.88693	0.609
68DAP/14DAP	0.80919	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.2075	0.151

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.27924	0.058
Mature Green Tomato/Ripe Tomato	1.45925	0.025
Immature Eggplant/Mature Eggplant	0.98361	0.808
Ripe Pepper/Ripe Tomato	1.43987	0.258
Mature Eggplant/Ripe Tomato	1.59515	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98896	0.961
1-1-2/M82	0.90362	0.958
12-2/M82	1.03451	1
12-4/M82	0.98425	1
1-3/M82	1.02037	1
2-1-1/M82	1.14985	0.689
2-1/M82	1.00612	1
2-6/M82	1.07708	0.695
3-2/M82	0.96855	1
4-1-1/M82	1.05754	1
4-1/M82	1.00957	1
4-3-2/M82	1.11289	1
4-3/M82	1.12224	1
5-3/M82	0.97536	1
6-2/M82	0.94554	1
6-3/M82	1.00948	1
7-1/M82	0.95029	1
7-2/M82	1.02165	0.385
9-3-2/M82	1.03954	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.87473
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	1.17904	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97419	1
DC3000/delta hrp 6h	1.09686	1
DC3000/delta hrp 12h	1.10145	1
DC3000/delta hrp 24h	1.03185	0.743

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.04195	0.355
DC3000 delta B/DC3000 delta AB	1.01593	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92539	1
Exp 36h	1.06709	1
Exp 60h	0.90283	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98353	1
Var 0h	1.17902	1
Var 12h I row2-row1	1.02324	0.613
Var 12h NI row2-row1	0.93179	0.546
Var 36h I row2-row1	0.98902	1
Var 36h NI row2-row1	0.92332	0.478
Var 60h I row2-row1	1.18168	0.562
Var 60h NI row2-row1	0.93154	0.756
Time course 0hI-0hNI	0.91512	0.209
Time course 12hI-12hNI	1.01458	0.85
Time course 36hI-36hNI	1.11943	0.453
Time course 60hI-60hNI	1.20188	0.025

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)	0.89707	0.377
transgenic ySAMdc/azygous control (breaker)	2.10647	0.172
transgenic ySAMdc/azygous control (red)	1.35519	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05276	0.092

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.99896	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.89374	1
Manapal/WT (break)	1.02899	1
Manapal/WT (red)	0.99076	0.863