Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.1.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10269	0.656
27DAP/17DAP	0.83915	0.52
39DAP/27DAP	0.89241	0.573
41DAP/39DAP	1.0465	0.929
42DAP/41DAP	1.12408	0.871
43DAP/42DAP	1.17818	0.778
47DAP/43DAP	1.02744	0.943
52DAP/47DAP	1.15925	0.776
57DAP/52DAP	1.05318	0.996

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99409	0.693
17DAP/reference	1.05777	0.546
27DAP/reference	1.16002	0.082
39DAP/reference	1.0464	0.593
41DAP/reference	1.07068	0.451
42DAP/reference	0.94557	0.169
43DAP/reference	1.08426	0.425
47DAP/reference	0.94913	0.242
52DAP/reference	0.84225	0.143
57DAP/reference	0.90567	0.112

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13764	0.252
27DAP/17DAP	0.94936	0.537
39DAP/27DAP	0.93633	0.35
41DAP/39DAP	0.91918	0.372
42DAP/41DAP	0.96682	0.726
43DAP/42DAP	1.02941	0.382
47DAP/43DAP	1.00134	1
52DAP/47DAP	1.01134	0.973
57DAP/52DAP	0.89509	0.137
57DAP/7DAP	1.04598	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95436	0.361
17DAP/reference	0.85231	0.015
27DAP/reference	0.82074	0.012
39DAP/reference	0.89901	0.056
41DAP/reference	0.86525	0.026
42DAP/reference	0.78404	0.01
43DAP/reference	0.80951	0.018
47DAP/reference	0.89757	0.293
52DAP/reference	0.82928	0.038
57DAP/reference	0.8458	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93764	0.238
17DAP/reference	0.94049	0.26
27DAP/reference	0.8918	0.087
39DAP/reference	0.84196	0.044
41DAP/reference	0.91313	0.115
42DAP/reference	0.91898	0.121
43DAP/reference	0.82982	0.058
47DAP/reference	0.94105	0.087
52DAP/reference	0.85752	0.023
57DAP/reference	0.76875	0.04

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00008	0.804
17DAP/reference	1.04891	0.665
27DAP/reference	1.03277	0.805
39DAP/reference	0.93524	0.069
41DAP/reference	0.98936	0.754
42DAP/reference	0.78509	0.019
43DAP/reference	1.01022	0.894
47DAP/reference	1.22553	0.037
52DAP/reference	0.84468	0.284
57DAP/reference	1.05657	0.636

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0259	0.966
26DAP/20DAP	0.89891	1
34DAP/26DAP	1.01923	1
51DAP/34DAP	0.94881	0.727
52DAP/51DAP	1.00329	1
53DAP/52DAP	0.93985	0.712
55DAP/53DAP	0.95264	0.709
57DAP/55DAP	0.99561	0.925
62DAP/57DAP	1.6987
68DAP/62DAP	0.89564	0.787
68DAP/14DAP	0.88274	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.85791	0.285

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.88523	0.39
Mature Green Tomato/Ripe Tomato	1.42282
Immature Eggplant/Mature Eggplant	0.60426	0.062
Ripe Pepper/Ripe Tomato	1.77481	0.256
Mature Eggplant/Ripe Tomato	1.37067	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.21344	0.877
1-1-2/M82	0.99298	1
12-2/M82	1.00465	1
12-4/M82	1.04658	1
1-3/M82	1.16606	1
2-1-1/M82	0.97678	1
2-1/M82	0.83683	0.519
2-6/M82	0.98802	1
3-2/M82	0.99082	1
4-1-1/M82	1.06183	1
4-1/M82	0.92989	1
4-3-2/M82	1.20033	0.262
4-3/M82	1.0093	1
5-3/M82	0.98662	1
6-2/M82	1.0296	1
6-3/M82	0.92612	0.982
7-1/M82	1.04715
7-2/M82	1.116	1
9-3-2/M82	1.09416	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.76183	0.247
IL2-6/WTpooled	0.81403	0.473
IL7-5/WTpooled	1.21578	1
IL7-3/WTpooled	0.621	0.418
IL12-4/WTpooled	0.68033	0.554
IL1-4/WTpooled	0.95728	0.435
WT/WTpooled	1.27846	0.87

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	1.05084	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95792	1
DC3000/delta hrp 6h	0.8767	0.95
DC3000/delta hrp 12h	1.19506
DC3000/delta hrp 24h	1.02295	0.797

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.71006	0.023
DC3000 delta B/DC3000 delta AB	0.84728	0.039

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.43913	1
Exp 36h	0.87502	0.749
Exp 60h	0.83821	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95778	1
Var 0h	0.92244	0.933
Var 12h I row2-row1	0.84844	0.418
Var 12h NI row2-row1	0.93451	0.82
Var 36h I row2-row1	1.08824	1
Var 36h NI row2-row1	1.17761	1
Var 60h I row2-row1	1.05044	1
Var 60h NI row2-row1	0.96517	1
Time course 0hI-0hNI	0.94017	0.623
Time course 12hI-12hNI	0.93719	0.497
Time course 36hI-36hNI	0.86834	0.045
Time course 60hI-60hNI	0.28551	0.005

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)	1.0554	0.612
transgenic ySAMdc/azygous control (breaker)	1.08222	1
transgenic ySAMdc/azygous control (red)	1.68842	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.10889	0.301

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.10424	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.46122	0.307
Manapal/WT (break)	1.34182	1
Manapal/WT (red)	1.33845	0.222