Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.15.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02531	0.964
27DAP/17DAP	0.98366	0.963
39DAP/27DAP	0.82068	0.522
41DAP/39DAP	1.61101	0.278
42DAP/41DAP	1.13956	1
43DAP/42DAP	0.97672	0.918
47DAP/43DAP	0.90552	0.68
52DAP/47DAP	1.18528	0.763
57DAP/52DAP	0.99831	0.978

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.32323	0.013
17DAP/reference	1.38559	0.02
27DAP/reference	1.23768	0.096
39DAP/reference	1.25437	0.214
41DAP/reference	1.55518	0.041
42DAP/reference	1.24774	0.002
43DAP/reference	1.0262	0.838
47DAP/reference	1.23263	0.003
52DAP/reference	1.21783	0.114
57DAP/reference	1.01958	0.767

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00971	1
27DAP/17DAP	1.05779	0.836
39DAP/27DAP	1.04128	0.636
41DAP/39DAP	1.08917	0.853
42DAP/41DAP	1.06379	0.795
43DAP/42DAP	1.03206	0.627
47DAP/43DAP	0.97842	0.902
52DAP/47DAP	1.07043	0.749
57DAP/52DAP	1.00016	0.913
57DAP/7DAP	1.00282	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93544	0.157
17DAP/reference	0.9139	0.011
27DAP/reference	0.92495	0.012
39DAP/reference	0.94695	0.039
41DAP/reference	0.91449	0.107
42DAP/reference	0.90841	0.027
43DAP/reference	0.91192	0.017
47DAP/reference	0.90559	0.222
52DAP/reference	0.89712	0.053
57DAP/reference	0.91404	0.071

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30187	0.083
17DAP/reference	1.35566	0.016
27DAP/reference	1.33374	0.016
39DAP/reference	1.43509	0.013
41DAP/reference	1.2625	0.138
42DAP/reference	1.23953	0.074
43DAP/reference	1.42862	0.014
47DAP/reference	1.2885	0.009
52DAP/reference	1.42622	0.006
57DAP/reference	1.80121	0.01

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93225	0.042
17DAP/reference	1.05933	0.538
27DAP/reference	0.97641	0.23
39DAP/reference	1.03992	0.962
41DAP/reference	1.04012	0.916
42DAP/reference	0.91629	0.108
43DAP/reference	1.10627	0.541
47DAP/reference	1.31037	0.196
52DAP/reference	0.94713	0.551
57DAP/reference	0.79056	0.053

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12692	0.966
26DAP/20DAP	0.94321	1
34DAP/26DAP	0.96136	0.857
51DAP/34DAP	0.99166	0.911
52DAP/51DAP	1.01927	0.86
53DAP/52DAP	1.08526	0.623
55DAP/53DAP	1.05122	0.703
57DAP/55DAP	0.95489	0.783
62DAP/57DAP	1.11655	0.622
68DAP/62DAP	0.63311	0.152
68DAP/14DAP	0.52456	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.86271	0.211

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.18793	0.881
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98532	0.961
1-1-2/M82	0.94624
12-2/M82	1.38502
12-4/M82	0.99031	1
1-3/M82	0.89846	0.501
2-1-1/M82	N/A	N/A
2-1/M82	1.94069
2-6/M82	0.9894	1
3-2/M82	0.92605	0.455
4-1-1/M82	1.06016	1
4-1/M82	0.88643	1
4-3-2/M82	0.77276	0.698
4-3/M82	0.78297	1
5-3/M82	0.91297	0.642
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.91445
7-2/M82	0.95843	1
9-3-2/M82	0.92277	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.79644	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.04472	1
IL12-4/WTpooled	1.10375	0.737
IL1-4/WTpooled	1.04008	1
WT/WTpooled	0.94225	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	1.00913	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07557	0.692
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.21844	1
DC3000/delta hrp 24h	1.04254	0.76

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.99624	1
DC3000 delta B/DC3000 delta AB	0.99818	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95489	1
Var 0h	0.80739	0.933
Var 12h I row2-row1	1.11021	0.379
Var 12h NI row2-row1	1.02823	1
Var 36h I row2-row1	0.85481	0.805
Var 36h NI row2-row1	0.94365	0.61
Var 60h I row2-row1	1.28005	1
Var 60h NI row2-row1	1.09006	0.904
Time course 0hI-0hNI	1.11591	0.764
Time course 12hI-12hNI	1.03968	0.785
Time course 36hI-36hNI	1.0001	0.826
Time course 60hI-60hNI	1.15294	0.069

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	1.09271	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.85243	0.038

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.15722	1
Manapal/WT (break)	1.41885	0.14
Manapal/WT (red)	1.00508	1