Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.16.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86409	0.427
27DAP/17DAP	1.03702	1
39DAP/27DAP	1.17428	0.752
41DAP/39DAP	1.05142	0.973
42DAP/41DAP	1.59834	0.751
43DAP/42DAP	1.23722	0.636
47DAP/43DAP	1.17603	0.769
52DAP/47DAP	0.98219	0.886
57DAP/52DAP	0.9769	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.51442	0.012
17DAP/reference	1.07739	0.412
27DAP/reference	1.28586	0.025
39DAP/reference	0.98567	0.816
41DAP/reference	1.12494	0.158
42DAP/reference	1.39768	0.003
43DAP/reference	1.05864	0.758
47DAP/reference	1.25114	0.009
52DAP/reference	1.50232	0.015
57DAP/reference	1.27181	0.097

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98357	0.763
27DAP/17DAP	0.99878	1
39DAP/27DAP	1.07241	0.512
41DAP/39DAP	1.05576	0.883
42DAP/41DAP	1.00633	0.853
43DAP/42DAP	1.09085	0.324
47DAP/43DAP	1.01672	0.948
52DAP/47DAP	1.10123	0.624
57DAP/52DAP	1.15647	0.372
57DAP/7DAP	1.10296	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00983	0.758
17DAP/reference	0.8946	0.192
27DAP/reference	0.87234	0.082
39DAP/reference	0.94974	0.264
41DAP/reference	1.07742	0.577
42DAP/reference	0.86278	0.058
43DAP/reference	0.93822	0.159
47DAP/reference	1.19545	0.089
52DAP/reference	1.05894	0.428
57DAP/reference	0.97524	0.396

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13076	0.545
17DAP/reference	1.65755	0.008
27DAP/reference	1.33833	0.052
39DAP/reference	1.31749	0.099
41DAP/reference	1.71041	0.007
42DAP/reference	1.56657	0.019
43DAP/reference	1.1594	0.713
47DAP/reference	1.18118	0.031
52DAP/reference	1.51206	0.01
57DAP/reference	1.27433	0.029

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90068	0.29
17DAP/reference	1.18586	0.289
27DAP/reference	0.82771	0.025
39DAP/reference	1.0495	0.792
41DAP/reference	1.29177	0.168
42DAP/reference	1.1696	0.701
43DAP/reference	1.28866	0.151
47DAP/reference	1.17519	0.48
52DAP/reference	0.94005	0.472
57DAP/reference	1.47815	0.026

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.76986	1
26DAP/20DAP	0.95107	1
34DAP/26DAP	1.00852	1
51DAP/34DAP	1.00553	1
52DAP/51DAP	1.02689	0.733
53DAP/52DAP	1.97656	0.413
55DAP/53DAP	1.05072	0.645
57DAP/55DAP	1.24702	0.203
62DAP/57DAP	0.89563	0.681
68DAP/62DAP	1.08668	0.863
68DAP/14DAP	0.61896	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.00168	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.15562	0.176
Mature Green Tomato/Ripe Tomato	0.74633	0.055
Immature Eggplant/Mature Eggplant	0.98643	1
Ripe Pepper/Ripe Tomato	1.02932
Mature Eggplant/Ripe Tomato	1.05672

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.73227
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
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	1.09962

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.16104	0.584
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.28092	1
IL12-4/WTpooled	1.10002	0.595
IL1-4/WTpooled	0.9806
WT/WTpooled	0.99528	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	1.00528	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05403	0.921
DC3000/delta hrp 6h	1.26988	1
DC3000/delta hrp 12h	1.0459	1
DC3000/delta hrp 24h	2.78185	0.283

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.93555	0.803
DC3000 delta B/DC3000 delta AB	1.06859	0.498

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.93181	1
Exp 36h	1.03209	1
Exp 60h	0.89599	0.586

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98264	1
Var 0h	1.02336	0.936
Var 12h I row2-row1	0.91817	0.705
Var 12h NI row2-row1	0.91537	0.488
Var 36h I row2-row1	0.87007	1
Var 36h NI row2-row1	1.00055	1
Var 60h I row2-row1	0.98601	1
Var 60h NI row2-row1	0.96322	1
Time course 0hI-0hNI	1.02297	0.852
Time course 12hI-12hNI	1.00395	1
Time course 36hI-36hNI	1.15501	0.05
Time course 60hI-60hNI	1.09863	0.16

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)	1.06032	0.748
transgenic ySAMdc/azygous control (breaker)	1.22048	0.248
transgenic ySAMdc/azygous control (red)	0.98894	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.13918	0.096

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.99279	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.91166	0.172
Manapal/WT (break)	1.09759	1
Manapal/WT (red)	1.14228	0.125