Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.3.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83132	0.413
27DAP/17DAP	0.88304	0.766
39DAP/27DAP	1.26489	0.47
41DAP/39DAP	1.05095	0.964
42DAP/41DAP	0.94594	1
43DAP/42DAP	0.8664	0.806
47DAP/43DAP	1.35995	0.282
52DAP/47DAP	1.24695	0.61
57DAP/52DAP	1.41023	0.853

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80999	0.055
17DAP/reference	0.95655	0.536
27DAP/reference	1.28176	0.009
39DAP/reference	0.92034	0.267
41DAP/reference	0.80038	0.031
42DAP/reference	0.93576	0.115
43DAP/reference	0.97308	0.576
47DAP/reference	1.05556	0.541
52DAP/reference	1.09777	0.524
57DAP/reference	1.15764	0.037

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.24551	0.334
27DAP/17DAP	0.93084	0.821
39DAP/27DAP	0.69774	0.028
41DAP/39DAP	0.95302	0.893
42DAP/41DAP	0.8087	0.135
43DAP/42DAP	0.81489	0.073
47DAP/43DAP	0.9242	0.597
52DAP/47DAP	0.8704	0.645
57DAP/52DAP	1.13863	0.571
57DAP/7DAP	1.82781	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1	0.318
17DAP/reference	1.20704	0.092
27DAP/reference	1.27335	0.049
39DAP/reference	1.27829	0.157
41DAP/reference	1.18662	0.153
42DAP/reference	1.18248	0.174
43DAP/reference	1.16112	0.132
47DAP/reference	1.08489	0.791
52DAP/reference	1.23372	0.159
57DAP/reference	1.19638	0.07

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.66036	0.014
17DAP/reference	0.83065	0.086
27DAP/reference	0.96908	0.467
39DAP/reference	0.99828	0.621
41DAP/reference	1.01016	1
42DAP/reference	0.91405	0.037
43DAP/reference	0.72199	0.049
47DAP/reference	0.77611	0.011
52DAP/reference	0.79334	0.008
57DAP/reference	0.54292	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17909	0.258
17DAP/reference	1.0617	0.839
27DAP/reference	1.50159	0.014
39DAP/reference	1.20707	0.034
41DAP/reference	1.26941	0.15
42DAP/reference	1.25046	0.067
43DAP/reference	1.46281	0.013
47DAP/reference	1.73208	0.016
52DAP/reference	1.17182	0.212
57DAP/reference	1.81491	0.01

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09455	0.966
26DAP/20DAP	1.20088	0.886
34DAP/26DAP	0.79342	0.619
51DAP/34DAP	0.61855	0.049
52DAP/51DAP	0.89823	1
53DAP/52DAP	1.09555	0.868
55DAP/53DAP	1.03049	0.951
57DAP/55DAP	0.91369	0.703
62DAP/57DAP	1.03994	0.868
68DAP/62DAP	1.32453	0.188
68DAP/14DAP	1.49848	0.034

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.12529	0.782

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.8945	0.418
Mature Green Tomato/Ripe Tomato	3.46892	0.021
Immature Eggplant/Mature Eggplant	0.44425	0.062
Ripe Pepper/Ripe Tomato	0.93138	1
Mature Eggplant/Ripe Tomato	0.61648	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.67366
12-2/M82	N/A	N/A
12-4/M82	0.91428	1
1-3/M82	1.15005
2-1-1/M82	N/A	N/A
2-1/M82	1.75038
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	0.70943
5-3/M82	1.31404
6-2/M82	0.76412
6-3/M82	1.08845
7-1/M82	N/A	N/A
7-2/M82	0.54696
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.95586	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.29318	0.792
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.97541	0.834
WT/WTpooled	N/A	N/A

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	1.14435	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02583	0.894
DC3000/delta hrp 6h	1.08623	1
DC3000/delta hrp 12h	1.24857	1
DC3000/delta hrp 24h	0.64889	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.99037	1
DC3000 delta B/DC3000 delta AB	0.6896	0.097

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.15756	1
Exp 36h	0.76581	0.623
Exp 60h	0.76161	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00602
Var 0h	1.19767	0.936
Var 12h I row2-row1	0.77147	0.467
Var 12h NI row2-row1	1.01723	1
Var 36h I row2-row1	0.86291	0.805
Var 36h NI row2-row1	0.97947	1
Var 60h I row2-row1	1.07562	0.562
Var 60h NI row2-row1	1.14049	0.904
Time course 0hI-0hNI	1.02764	0.852
Time course 12hI-12hNI	0.82886	0.094
Time course 36hI-36hNI	0.62473	0.023
Time course 60hI-60hNI	0.13825	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)	0.89164	0.324
transgenic ySAMdc/azygous control (breaker)	1.27281	0.248
transgenic ySAMdc/azygous control (red)	1.94488	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.4014	0.163

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.95079	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.46692	0.087
Manapal/WT (break)	2.32539	0.183
Manapal/WT (red)	1.47068	1