Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.10.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91947	0.522
27DAP/17DAP	1.40088	0.633
39DAP/27DAP	1.04527	0.995
41DAP/39DAP	1.25058	0.494
42DAP/41DAP	1.30349	0.813
43DAP/42DAP	0.91612	0.801
47DAP/43DAP	1.14729	0.733
52DAP/47DAP	1.14471	0.772
57DAP/52DAP	1.01437	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03009	0.788
17DAP/reference	0.94185	0.342
27DAP/reference	1.03251	0.58
39DAP/reference	0.9469	0.412
41DAP/reference	1.05471	0.421
42DAP/reference	1.1372	0.001
43DAP/reference	0.9323	0.287
47DAP/reference	1.0582	0.353
52DAP/reference	1.0933	0.335
57DAP/reference	0.98341	0.358

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01929	0.923
27DAP/17DAP	0.99273	0.943
39DAP/27DAP	0.99641	1
41DAP/39DAP	1.04233	0.79
42DAP/41DAP	0.93324	0.404
43DAP/42DAP	1.03069	0.413
47DAP/43DAP	1.00588	0.973
52DAP/47DAP	1.01065	0.973
57DAP/52DAP	1.00331	1
57DAP/7DAP	0.97925	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02389	0.843
17DAP/reference	1.0602	0.123
27DAP/reference	1.13451	0.026
39DAP/reference	0.939	0.354
41DAP/reference	1.09953	0.223
42DAP/reference	0.98426	0.641
43DAP/reference	0.98724	0.665
47DAP/reference	0.91403	0.293
52DAP/reference	1.02616
57DAP/reference	1.05571	0.046

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07305	0.319
17DAP/reference	1.21539	0.065
27DAP/reference	1.07615	0.235
39DAP/reference	0.99345	0.621
41DAP/reference	0.96768	0.307
42DAP/reference	1.12332	0.17
43DAP/reference	1.08027	0.688
47DAP/reference	1.02468	0.589
52DAP/reference	1.06418	0.168
57DAP/reference	1.04855	0.314

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09527	0.28
17DAP/reference	1.06214	0.394
27DAP/reference	1.03023	0.552
39DAP/reference	1.11858	0.02
41DAP/reference	1.06053	0.231
42DAP/reference	1.00624	0.961
43DAP/reference	1.07432	0.412
47DAP/reference	1.00193	1
52DAP/reference	1.04782	0.549
57DAP/reference	0.92918	0.065

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9883	1
26DAP/20DAP	0.95104	1
34DAP/26DAP	0.98809	1
51DAP/34DAP	0.98092	0.816
52DAP/51DAP	1.01189	0.888
53DAP/52DAP	1.03478	0.858
55DAP/53DAP	0.92972	0.293
57DAP/55DAP	1.38578	0.764
62DAP/57DAP	0.91013	0.466
68DAP/62DAP	0.96305	0.787
68DAP/14DAP	1.03044	0.87

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.10112	0.229

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.77015	0.063
Mature Green Tomato/Ripe Tomato	0.99893	0.66
Immature Eggplant/Mature Eggplant	0.98598	1
Ripe Pepper/Ripe Tomato	0.56921	0.293
Mature Eggplant/Ripe Tomato	0.35946	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.90479	0.907
1-1-2/M82	1.02105	1
12-2/M82	1.00119	1
12-4/M82	0.9517	0.619
1-3/M82	0.91916	0.441
2-1-1/M82	0.90218	0.683
2-1/M82	1.18315	1
2-6/M82	0.9439	1
3-2/M82	1.00362
4-1-1/M82	1.00947	1
4-1/M82	0.93569
4-3-2/M82	0.91041
4-3/M82	0.98988	1
5-3/M82	0.96031	1
6-2/M82	1.0466	1
6-3/M82	1.06737	1
7-1/M82	1.0509	0.598
7-2/M82	0.90938	0.599
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.9939	0.247
IL2-6/WTpooled	1.07074	1
IL7-5/WTpooled	0.74513	0.559
IL7-3/WTpooled	0.89676	0.298
IL12-4/WTpooled	0.81663	0.71
IL1-4/WTpooled	1.08378	1
WT/WTpooled	1.00677	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	2.13375

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05709	0.921
DC3000/delta hrp 6h	1.14495	1
DC3000/delta hrp 12h	0.96331	1
DC3000/delta hrp 24h	1.12001	0.212

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.04588	0.355
DC3000 delta B/DC3000 delta AB	1.02394	0.665

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	0.87047	0.539
Exp 60h	0.81152	0.386

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99109	1
Var 0h	0.52424	0.374
Var 12h I row2-row1	1.08258	0.242
Var 12h NI row2-row1	0.86607	0.427
Var 36h I row2-row1	1.0272	1
Var 36h NI row2-row1	0.81796	0.61
Var 60h I row2-row1	1.15698	0.562
Var 60h NI row2-row1	1.21956	0.904
Time course 0hI-0hNI	1.03064	0.867
Time course 12hI-12hNI	1.02203	0.811
Time course 36hI-36hNI	0.89484	0.065
Time course 60hI-60hNI	1.04065	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)	1.99599	0.292
transgenic ySAMdc/azygous control (breaker)	0.39789	0.119
transgenic ySAMdc/azygous control (red)	1.56441	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00056	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.70587	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.02865	1
Manapal/WT (break)	0.61035	1
Manapal/WT (red)	0.64851	0.181