Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.17.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13023	0.681
27DAP/17DAP	1.11558	0.849
39DAP/27DAP	1.07949	1
41DAP/39DAP	1.14686	0.442
42DAP/41DAP	1.16294	0.802
43DAP/42DAP	1.29538	0.382
47DAP/43DAP	1.1174	0.943
52DAP/47DAP	1.17177	0.93
57DAP/52DAP	1.22543	0.784

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01391	0.928
17DAP/reference	1.01453	0.874
27DAP/reference	0.99248	0.779
39DAP/reference	1.01459	0.8
41DAP/reference	1.03538	0.451
42DAP/reference	1.015	0.731
43DAP/reference	1.00567	0.982
47DAP/reference	0.97469	0.322
52DAP/reference	0.94365	0.3
57DAP/reference	0.92004	0.042

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95328	0.415
27DAP/17DAP	1.01109	0.967
39DAP/27DAP	1.00304	0.862
41DAP/39DAP	1.10693	0.427
42DAP/41DAP	1.00713	1
43DAP/42DAP	0.96209	0.269
47DAP/43DAP	0.99416	0.985
52DAP/47DAP	0.99503	0.962
57DAP/52DAP	1.0202	0.877
57DAP/7DAP	1.04486	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82485	0.08
17DAP/reference	0.76984	0.011
27DAP/reference	0.78587	0.01
39DAP/reference	0.812	0.013
41DAP/reference	0.89437	0.09
42DAP/reference	0.81094	0.012
43DAP/reference	0.84863	0.066
47DAP/reference	0.88991	0.101
52DAP/reference	0.76642	0.012
57DAP/reference	0.89261	0.176

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0239	0.75
17DAP/reference	1.01048	0.92
27DAP/reference	0.97511	0.501
39DAP/reference	1.01312	1
41DAP/reference	0.94107	0.183
42DAP/reference	0.88093	0.098
43DAP/reference	0.9995	0.863
47DAP/reference	0.94761	0.064
52DAP/reference	0.96869	0.351
57DAP/reference	1.06891	0.182

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99899	0.653
17DAP/reference	0.98948	0.751
27DAP/reference	0.81644	0.023
39DAP/reference	0.81453	0.018
41DAP/reference	0.83451	0.019
42DAP/reference	0.71696	0.023
43DAP/reference	0.84006	0.022
47DAP/reference	0.94005	0.278
52DAP/reference	0.74329	0.121
57DAP/reference	0.78516	0.023

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.93217	0.981
26DAP/20DAP	0.93228	0.512
34DAP/26DAP	1.00147	1
51DAP/34DAP	0.97185	0.779
52DAP/51DAP	0.98527	1
53DAP/52DAP	0.9153	0.301
55DAP/53DAP	0.99501	0.908
57DAP/55DAP	1.29688	0.694
62DAP/57DAP	1.02528	0.902
68DAP/62DAP	0.84387	0.429
68DAP/14DAP	0.99991	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97911	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.40555	0.078
Mature Green Tomato/Ripe Tomato	0.63548	0.446
Immature Eggplant/Mature Eggplant	0.79711	0.111
Ripe Pepper/Ripe Tomato	1.34491	1
Mature Eggplant/Ripe Tomato	0.62332	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.06265	0.742
1-1-2/M82	1.03053	1
12-2/M82	0.99926	1
12-4/M82	0.977	0.619
1-3/M82	0.89654	0.441
2-1-1/M82	1.00766	1
2-1/M82	1.62465	1
2-6/M82	1.06459	0.695
3-2/M82	0.96275
4-1-1/M82	0.86551	1
4-1/M82	1.05301
4-3-2/M82	1.25046
4-3/M82	0.97675	1
5-3/M82	1.04136	1
6-2/M82	1.00252	1
6-3/M82	0.97631	1
7-1/M82	0.83329	0.803
7-2/M82	0.99147	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.38725	0.277
IL2-6/WTpooled	0.54778	0.358
IL7-5/WTpooled	0.7519	1
IL7-3/WTpooled	1.52642	1
IL12-4/WTpooled	1.0611	0.695
IL1-4/WTpooled	0.76316	0.402
WT/WTpooled	1.01371	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	1.02639	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.87641	1
DC3000/delta hrp 6h	1.37187	1
DC3000/delta hrp 12h	1.05945	1
DC3000/delta hrp 24h	0.97253	0.808

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.00793	0.648
DC3000 delta B/DC3000 delta AB	1.00862	0.748

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.9959	1
Exp 36h	1.22778	0.371
Exp 60h	1.00455	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96128	1
Var 0h	1.41061	1
Var 12h I row2-row1	0.99929	1
Var 12h NI row2-row1	0.91579	0.713
Var 36h I row2-row1	0.93259	1
Var 36h NI row2-row1	0.89705	0.645
Var 60h I row2-row1	1.15565	0.562
Var 60h NI row2-row1	1.10575	0.904
Time course 0hI-0hNI	1.11416	0.799
Time course 12hI-12hNI	1.00039	1
Time course 36hI-36hNI	0.98538	0.514
Time course 60hI-60hNI	1.04785	0.359

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)	0.90227	0.315
transgenic ySAMdc/azygous control (breaker)	0.90289	0.251
transgenic ySAMdc/azygous control (red)	0.82429	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.9864	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.2888	0.093
Manapal/WT (break)	0.82916	1
Manapal/WT (red)	1.00077	0.863