Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.19.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.27002	0.709
27DAP/17DAP	0.8246	0.589
39DAP/27DAP	1.51375	0.365
41DAP/39DAP	0.84232	0.485
42DAP/41DAP	0.76568	0.774
43DAP/42DAP	1.16611	1
47DAP/43DAP	0.95852	0.724
52DAP/47DAP	1.09149	0.957
57DAP/52DAP	1.16082	0.948

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96813	0.39
17DAP/reference	0.95486	0.18
27DAP/reference	0.98236	0.694
39DAP/reference	1.04032	0.335
41DAP/reference	0.8898	0.114
42DAP/reference	1.0335	0.632
43DAP/reference	0.99723	0.904
47DAP/reference	0.98595	0.503
52DAP/reference	0.95371	0.341
57DAP/reference	1.05583	0.31

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90237	0.311
27DAP/17DAP	0.95664	0.854
39DAP/27DAP	1.07179	0.623
41DAP/39DAP	1.10117	0.883
42DAP/41DAP	1.16581	0.316
43DAP/42DAP	2.40538	0.324
47DAP/43DAP	0.99212	0.977
52DAP/47DAP	0.97735	0.902
57DAP/52DAP	1.01098	1
57DAP/7DAP	1.0685	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01369	1
17DAP/reference	1.32649	0.038
27DAP/reference	1.51762	0.01
39DAP/reference	1.40226	0.008
41DAP/reference	1.35996	0.035
42DAP/reference	1.3359	0.013
43DAP/reference	1.48374	0.013
47DAP/reference	1.49984	0.028
52DAP/reference	1.14802	0.328
57DAP/reference	1.30116	0.033

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96635	0.564
17DAP/reference	0.93069	0.326
27DAP/reference	1.06485	0.507
39DAP/reference	0.95647	0.306
41DAP/reference	1.11985	0.053
42DAP/reference	1.10885	0.259
43DAP/reference	1.22374	0.392
47DAP/reference	1.43665	0.012
52DAP/reference	0.91393	0.031
57DAP/reference	1.07293	0.771

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04566	0.809
17DAP/reference	1.08843	0.612
27DAP/reference	1.60962	0.033
39DAP/reference	1.61808	0.016
41DAP/reference	1.5479	0.009
42DAP/reference	1.33678	0.027
43DAP/reference	1.25188	0.157
47DAP/reference	1.02447	1
52DAP/reference	1.25869	0.132
57DAP/reference	1.54122	0.03

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02676	0.966
26DAP/20DAP	0.84935	0.512
34DAP/26DAP	0.98911	0.998
51DAP/34DAP	0.89277	0.571
52DAP/51DAP	0.93662	1
53DAP/52DAP	1.03751	0.901
55DAP/53DAP	1.00202	0.939
57DAP/55DAP	1.21343	0.376
62DAP/57DAP	0.8223	0.681
68DAP/62DAP	1.26821	0.242
68DAP/14DAP	1.26592	0.694

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.95518	0.443

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.69491	0.068
Mature Green Tomato/Ripe Tomato	1.66117	0.095
Immature Eggplant/Mature Eggplant	1.57306	0.05
Ripe Pepper/Ripe Tomato	0.83177	0.293
Mature Eggplant/Ripe Tomato	1.18686	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.998	1
1-1-2/M82	0.99724	1
12-2/M82	0.87669	0.639
12-4/M82	0.88654	0.619
1-3/M82	0.9504	1
2-1-1/M82	1.03081	1
2-1/M82	1.04227	1
2-6/M82	0.94918	1
3-2/M82	0.97105
4-1-1/M82	1.20547	1
4-1/M82	1.01843
4-3-2/M82	1.44048
4-3/M82	1.07295	1
5-3/M82	1.06619	1
6-2/M82	1.04933	1
6-3/M82	1.12845	1
7-1/M82	1.08356
7-2/M82	1.02491	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
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	1.27916	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11516	0.921
DC3000/delta hrp 6h	0.91165	0.95
DC3000/delta hrp 12h	0.99442	1
DC3000/delta hrp 24h	1.03742	0.779

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.52738	0.042
DC3000 delta B/DC3000 delta AB	1.15847	0.274

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.88305	1
Exp 36h	1.43247	1
Exp 60h	1.11135	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99864	1
Var 0h	0.48256	1
Var 12h I row2-row1	1.04042	0.506
Var 12h NI row2-row1	1.28562	1
Var 36h I row2-row1	1.09491	1
Var 36h NI row2-row1	0.85768	0.584
Var 60h I row2-row1	0.89677	0.293
Var 60h NI row2-row1	0.89291	0.69
Time course 0hI-0hNI	0.9893	1
Time course 12hI-12hNI	1.29879	0.007
Time course 36hI-36hNI	1.49984	0.007
Time course 60hI-60hNI	1.90649	0.008

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)	0.91419	0.26
transgenic ySAMdc/azygous control (breaker)	1.16964	0.248
transgenic ySAMdc/azygous control (red)	1.09371	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0826	0.35

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.0031	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.88168	1
Manapal/WT (break)	0.8752	0.333
Manapal/WT (red)	1.0297	1