Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.19.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.73998	0.105
27DAP/17DAP	0.56092	0.077
39DAP/27DAP	0.82714	0.495
41DAP/39DAP	0.78959	0.262
42DAP/41DAP	1.40103	0.107
43DAP/42DAP	1.39585	0.279
47DAP/43DAP	1.22878	0.412
52DAP/47DAP	0.75304	0.42
57DAP/52DAP	0.8274	0.869

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10543	0.303
17DAP/reference	0.94146	0.24
27DAP/reference	0.935	0.369
39DAP/reference	0.77992	0.025
41DAP/reference	0.71133	0.031
42DAP/reference	0.84266	0.007
43DAP/reference	0.84677	0.123
47DAP/reference	0.85626	0.03
52DAP/reference	0.92499	0.23
57DAP/reference	1.00605	0.805

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.34259	0.064
27DAP/17DAP	0.89152	0.648
39DAP/27DAP	0.93444	0.432
41DAP/39DAP	0.74455	0.108
42DAP/41DAP	1.17336	0.425
43DAP/42DAP	1.79279	0.079
47DAP/43DAP	1.03481	0.941
52DAP/47DAP	1.38894	0.239
57DAP/52DAP	0.99521	0.793
57DAP/7DAP	1.29116	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.43203	0.048
17DAP/reference	1.38644	0.028
27DAP/reference	1.27298	0.023
39DAP/reference	1.01284	1
41DAP/reference	0.84535	0.146
42DAP/reference	0.80727	0.063
43DAP/reference	0.93244	0.321
47DAP/reference	0.76005	0.128
52DAP/reference	0.73709	0.031
57DAP/reference	0.85897	0.045

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09574	0.443
17DAP/reference	0.88891	0.245
27DAP/reference	0.91731	0.34
39DAP/reference	0.87637	0.168
41DAP/reference	0.9654	0.412
42DAP/reference	0.80239	0.024
43DAP/reference	0.75047	0.072
47DAP/reference	0.66657	0.01
52DAP/reference	0.8004	0.031
57DAP/reference	0.77228	0.024

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.89514	0.015
17DAP/reference	1.38163	0.109
27DAP/reference	1.22796	0.037
39DAP/reference	1.18349	0.029
41DAP/reference	1.00624	0.826
42DAP/reference	1.00736	1
43DAP/reference	0.98116	0.614
47DAP/reference	0.7055	0.036
52DAP/reference	1.68676	0.583
57DAP/reference	1.06394	0.892

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.24112	0.966
26DAP/20DAP	1.09023	0.762
34DAP/26DAP	0.98843	0.991
51DAP/34DAP	1.02966	0.925
52DAP/51DAP	1.0117	0.954
53DAP/52DAP	0.60061	0.051
55DAP/53DAP	0.6466	0.026
57DAP/55DAP	0.8386	0.356
62DAP/57DAP	1.114	0.935
68DAP/62DAP	1.12459	0.597
68DAP/14DAP	0.98627	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.44877	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.51387	0.058
Mature Green Tomato/Ripe Tomato	1.78378	0.026
Immature Eggplant/Mature Eggplant	0.29198	0.062
Ripe Pepper/Ripe Tomato	12.3066
Mature Eggplant/Ripe Tomato	15.3436

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.8529
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.83744
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	1.18491

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.97623
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.56375
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.86998
IL1-4/WTpooled	0.68298
WT/WTpooled	1.38229	0.774

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	0.77062	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93724	1
DC3000/delta hrp 6h	1.26612	1
DC3000/delta hrp 12h	1.02186	1
DC3000/delta hrp 24h	0.3271	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.32318	0.023
DC3000 delta B/DC3000 delta AB	0.39455	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.91275	1
Exp 36h	0.67584	0.406
Exp 60h	0.55886	0.258

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97972	1
Var 0h	1.01009	0.98
Var 12h I row2-row1	0.69009	0.357
Var 12h NI row2-row1	0.94905	0.546
Var 36h I row2-row1	0.82714	1
Var 36h NI row2-row1	1.33585	0.276
Var 60h I row2-row1	1.45436	0.562
Var 60h NI row2-row1	1.12383	0.904
Time course 0hI-0hNI	0.96942	0.835
Time course 12hI-12hNI	0.99341	1
Time course 36hI-36hNI	0.9936	0.708
Time course 60hI-60hNI	0.04915	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)	0.91465	0.314
transgenic ySAMdc/azygous control (breaker)	1.60638	0.248
transgenic ySAMdc/azygous control (red)	0.90291	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.80401	0.131

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	3.31696	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	15.1796	0.084
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.10933	1