Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.20.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90225	0.486
27DAP/17DAP	1.15491	0.849
39DAP/27DAP	0.8132	0.382
41DAP/39DAP	1.40081	0.153
42DAP/41DAP	0.89164	1
43DAP/42DAP	1.01275	0.934
47DAP/43DAP	1.11148	0.95
52DAP/47DAP	1.66387	0.319
57DAP/52DAP	0.93147	0.938

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89245	0.308
17DAP/reference	1.03459	0.369
27DAP/reference	0.90004	0.012
39DAP/reference	0.99683	0.991
41DAP/reference	0.96225	0.434
42DAP/reference	0.85436	0.015
43DAP/reference	1.01656	0.928
47DAP/reference	0.82217	0.004
52DAP/reference	0.6745	0.049
57DAP/reference	0.72929	0.025

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94592	0.509
27DAP/17DAP	0.90908	0.614
39DAP/27DAP	1.05397	0.672
41DAP/39DAP	1.0019	1
42DAP/41DAP	1.05452	0.886
43DAP/42DAP	0.95006	0.503
47DAP/43DAP	1.0197	0.934
52DAP/47DAP	0.87772	0.389
57DAP/52DAP	0.94557	0.591
57DAP/7DAP	1.23239	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82163	0.157
17DAP/reference	0.92176	0.253
27DAP/reference	0.85851	0.03
39DAP/reference	0.81114	0.039
41DAP/reference	0.96873	0.449
42DAP/reference	0.73603	0.011
43DAP/reference	0.68816	0.018
47DAP/reference	0.96586	0.504
52DAP/reference	0.94068	0.254
57DAP/reference	0.9259	0.176

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03481	0.802
17DAP/reference	1.00174	0.805
27DAP/reference	0.78322	0.064
39DAP/reference	0.70343	0.034
41DAP/reference	0.77814	0.022
42DAP/reference	0.88992	0.237
43DAP/reference	0.94041	0.378
47DAP/reference	0.82831	0.014
52DAP/reference	0.96804	0.259
57DAP/reference	1.16725	0.221

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04695	0.846
17DAP/reference	1.07117	0.898
27DAP/reference	0.8834	0.108
39DAP/reference	0.94582	0.36
41DAP/reference	0.9774	0.618
42DAP/reference	0.89942	0.361
43DAP/reference	0.96349	0.468
47DAP/reference	0.94064	0.371
52DAP/reference	0.87545	0.262
57DAP/reference	0.57683	0.04

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05175	0.966
26DAP/20DAP	0.92882	1
34DAP/26DAP	1.07874	1
51DAP/34DAP	1.1706	0.429
52DAP/51DAP	1.05524	0.842
53DAP/52DAP	1.07408	0.688
55DAP/53DAP	1.07257	0.82
57DAP/55DAP	1.28808	0.543
62DAP/57DAP	1.1212	0.723
68DAP/62DAP	0.97075	0.787
68DAP/14DAP	0.71869	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.81837	0.022

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.78734	0.261
Mature Green Tomato/Ripe Tomato	1.04694	1
Immature Eggplant/Mature Eggplant	1.36253	0.061
Ripe Pepper/Ripe Tomato	2.97911	0.258
Mature Eggplant/Ripe Tomato	3.12572	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96792	0.944
1-1-2/M82	0.89206	1
12-2/M82	1.12824	1
12-4/M82	0.99436	1
1-3/M82	0.76226	0.378
2-1-1/M82	1.16387	0.343
2-1/M82	N/A	N/A
2-6/M82	1.06637	1
3-2/M82	0.81103	0.455
4-1-1/M82	1.1967	1
4-1/M82	0.71027
4-3-2/M82	0.89741	0.698
4-3/M82	0.91169	1
5-3/M82	0.96372	0.642
6-2/M82	0.95545	1
6-3/M82	0.98578	1
7-1/M82	N/A	N/A
7-2/M82	1.06506	1
9-3-2/M82	0.96883	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.25201	0.277
IL2-6/WTpooled	1.66111
IL7-5/WTpooled	1.21037	0.75
IL7-3/WTpooled	1.02056	1
IL12-4/WTpooled	1.46455	0.595
IL1-4/WTpooled	1.03632	1
WT/WTpooled	1.01562	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	1.12151	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99288	1
DC3000/delta hrp 6h	1.09984	1
DC3000/delta hrp 12h	1.09251	1
DC3000/delta hrp 24h	1.03882	0.655

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.19048
DC3000 delta B/DC3000 delta AB	1.05109	0.528

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.91941	1
Exp 36h	1.05032	1
Exp 60h	1.13161	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98427	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.12729	0.406
Var 12h NI row2-row1	1.09386	1
Var 36h I row2-row1	1.04382	1
Var 36h NI row2-row1	1.12429	1
Var 60h I row2-row1	1.03331	1
Var 60h NI row2-row1	0.87696	0.572
Time course 0hI-0hNI	0.99655	1
Time course 12hI-12hNI	1.0527	0.663
Time course 36hI-36hNI	1.16652	0.028
Time course 60hI-60hNI	2.08365	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)	1.06905	0.312
transgenic ySAMdc/azygous control (breaker)	1.0774	1
transgenic ySAMdc/azygous control (red)	1.06631	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97836	0.313

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.05012	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.79781	0.172
Manapal/WT (break)	0.86092	1
Manapal/WT (red)	0.77752	0.181