Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.16.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20981	0.561
27DAP/17DAP	0.51421	0.035
39DAP/27DAP	0.72771	0.392
41DAP/39DAP	0.65434	0.068
42DAP/41DAP	0.80259	0.774
43DAP/42DAP	1.03741	0.937
47DAP/43DAP	0.80668	0.416
52DAP/47DAP	1.1218	0.943
57DAP/52DAP	0.97386	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.65736	0.053
17DAP/reference	0.47663	0.008
27DAP/reference	0.46545	0.013
39DAP/reference	0.36945	0.012
41DAP/reference	0.29097	0.008
42DAP/reference	0.32449	0.001
43DAP/reference	0.36665	0.013
47DAP/reference	0.30666	0.001
52DAP/reference	0.30036	0.014
57DAP/reference	0.4554	0.009

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.68862	0.036
27DAP/17DAP	0.6899	0.135
39DAP/27DAP	0.32041	0.029
41DAP/39DAP	1.48686	0.041
42DAP/41DAP	0.82399	0.174
43DAP/42DAP	0.58513	0.022
47DAP/43DAP	1.03267	0.92
52DAP/47DAP	0.83899	0.624
57DAP/52DAP	1.73078	0.574
57DAP/7DAP	0.43349	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93498	0.095
17DAP/reference	0.66167	0.011
27DAP/reference	0.47066	0.01
39DAP/reference	0.39488	0.011
41DAP/reference	0.3126	0.009
42DAP/reference	0.32942	0.01
43DAP/reference	0.25128	0.009
47DAP/reference	0.22424	0.026
52DAP/reference	0.32048	0.01
57DAP/reference	0.3473	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.4625	0.007
17DAP/reference	0.4853	0.009
27DAP/reference	0.50161	0.014
39DAP/reference	0.3272	0.008
41DAP/reference	0.34636	0.005
42DAP/reference	0.34287	0.01
43DAP/reference	0.49341	0.004
47DAP/reference	0.26078	0.007
52DAP/reference	0.20132	0.003
57DAP/reference	0.14387	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.67701	0.027
17DAP/reference	1.76438	0.126
27DAP/reference	1.20516	0.143
39DAP/reference	0.97216	0.544
41DAP/reference	0.63396	0.019
42DAP/reference	0.46235	0.017
43DAP/reference	0.41672	0.016
47DAP/reference	0.26308	0.004
52DAP/reference	0.30243	0.05
57DAP/reference	0.76136	0.064

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.80435	1
26DAP/20DAP	1.00473	1
34DAP/26DAP	0.85453	0.311
51DAP/34DAP	0.41496	0.049
52DAP/51DAP	0.99355	1
53DAP/52DAP	0.59275	0.057
55DAP/53DAP	0.77448	0.062
57DAP/55DAP	1.3975	0.376
62DAP/57DAP	1.49149	0.008
68DAP/62DAP	1.29619	0.834
68DAP/14DAP	0.56488	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.64948	0.023

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.14693	0.058
Mature Green Tomato/Ripe Tomato	5.40465	0.015
Immature Eggplant/Mature Eggplant	0.36723	0.057
Ripe Pepper/Ripe Tomato	1.61935	0.256
Mature Eggplant/Ripe Tomato	6.83509	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.84451	0.841
1-1-2/M82	1.11858	1
12-2/M82	0.56034
12-4/M82	0.8727
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	1.00046
2-6/M82	0.59599
3-2/M82	1.04144	0.967
4-1-1/M82	1.5633	1
4-1/M82	N/A	N/A
4-3-2/M82	1.73494	0.241
4-3/M82	1.31671
5-3/M82	1.73647	0.467
6-2/M82	1.11485	1
6-3/M82	1.04942
7-1/M82	0.86571
7-2/M82	N/A	N/A
9-3-2/M82	1.31291

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.62369
IL7-5/WTpooled	1.26913
IL7-3/WTpooled	1.43844
IL12-4/WTpooled	1.0616	1
IL1-4/WTpooled	1.00505
WT/WTpooled	0.93555	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	1.10728	0.222

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96551	1
DC3000/delta hrp 6h	0.87822	0.95
DC3000/delta hrp 12h	0.99031	1
DC3000/delta hrp 24h	0.85801	0.269

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.75738	0.04
DC3000 delta B/DC3000 delta AB	0.41265	0.029

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98916	1
Exp 36h	0.95282	0.879
Exp 60h	0.91764	0.454

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02455	1
Var 0h	1.10723	0.98
Var 12h I row2-row1	0.94092	0.705
Var 12h NI row2-row1	0.95058	0.713
Var 36h I row2-row1	0.87557	0.805
Var 36h NI row2-row1	0.91561	0.61
Var 60h I row2-row1	1.33474	0.562
Var 60h NI row2-row1	1.05358	0.904
Time course 0hI-0hNI	1.00029	1
Time course 12hI-12hNI	1.02864	0.811
Time course 36hI-36hNI	1.02017	0.975
Time course 60hI-60hNI	0.72828	0.161

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)	1.04019	0.798
transgenic ySAMdc/azygous control (breaker)	2.15589	0.165
transgenic ySAMdc/azygous control (red)	1.15792	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.54236	0.104

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.31722	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	4.00895	0.086
Manapal/WT (break)	2.66358	0.126
Manapal/WT (red)	1.06517	1