Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.20.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91334	0.61
27DAP/17DAP	1.59269	0.565
39DAP/27DAP	0.73712	0.397
41DAP/39DAP	1.22559	0.416
42DAP/41DAP	0.76596	0.774
43DAP/42DAP	1.09765	1
47DAP/43DAP	1.30507	0.595
52DAP/47DAP	0.9202	0.619
57DAP/52DAP	1.05005	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00483
17DAP/reference	1.2831	0.306
27DAP/reference	1.01046	1
39DAP/reference	1.00841	0.901
41DAP/reference	1.05248
42DAP/reference	1.02405	0.517
43DAP/reference	0.7334
47DAP/reference	1.02879	0.627
52DAP/reference	1.02237	1
57DAP/reference	0.36118

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05138	0.99
27DAP/17DAP	1.1969	0.719
39DAP/27DAP	1.04553	0.854
41DAP/39DAP	0.87859	0.446
42DAP/41DAP	1.14098	0.687
43DAP/42DAP	1.15179	0.162
47DAP/43DAP	1.30563	0.331
52DAP/47DAP	1.14622	0.823
57DAP/52DAP	0.78032	0.29
57DAP/7DAP	0.8429	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89353	0.157
17DAP/reference	0.87529	0.013
27DAP/reference	0.85386	0.02
39DAP/reference	0.74334	0.015
41DAP/reference	0.78056	0.031
42DAP/reference	0.71986	0.015
43DAP/reference	0.83283	0.082
47DAP/reference	0.89536	0.222
52DAP/reference	1.02937	1
57DAP/reference	0.87926	0.056

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9754	0.688
17DAP/reference	0.85331	0.068
27DAP/reference	0.80984	0.229
39DAP/reference	0.94807	0.359
41DAP/reference	0.9541	0.472
42DAP/reference	0.89563	0.237
43DAP/reference	0.90989	0.17
47DAP/reference	0.85203	0.159
52DAP/reference	0.91933	0.22
57DAP/reference	1.01648	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85051	0.104
17DAP/reference	0.91445	0.313
27DAP/reference	0.86449	0.097
39DAP/reference	0.84415	0.031
41DAP/reference	0.9267	0.293
42DAP/reference	0.86561	0.134
43DAP/reference	0.92688	0.432
47DAP/reference	0.93175	0.278
52DAP/reference	1.03261	0.735
57DAP/reference	1.05963	0.452

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.91781	1
26DAP/20DAP	0.99706	1
34DAP/26DAP	0.90687
51DAP/34DAP	0.69806	0.125
52DAP/51DAP	1.38888
53DAP/52DAP	1.04366
55DAP/53DAP	1.20751	0.722
57DAP/55DAP	1.28669	0.927
62DAP/57DAP	1.08818	0.8
68DAP/62DAP	1.00079	0.885
68DAP/14DAP	1.45157	0.802

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.75031	0.092

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.9312	0.522
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.84857	0.673
1-1-2/M82	0.79602	0.804
12-2/M82	1.10081
12-4/M82	1.30295	1
1-3/M82	N/A	N/A
2-1-1/M82	1.27669
2-1/M82	N/A	N/A
2-6/M82	0.94817	1
3-2/M82	1.11921
4-1-1/M82	N/A	N/A
4-1/M82	0.99046	1
4-3-2/M82	0.87139	0.487
4-3/M82	0.64539
5-3/M82	1.08694	0.572
6-2/M82	0.51256
6-3/M82	0.84602	1
7-1/M82	1.04095
7-2/M82	0.70625
9-3-2/M82	0.85318	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.69936	0.243
IL2-6/WTpooled	1.26967	0.415
IL7-5/WTpooled	1.19533	0.75
IL7-3/WTpooled	0.41334
IL12-4/WTpooled	1.04799	1
IL1-4/WTpooled	0.99264	1
WT/WTpooled	0.78377	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	0.82413	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06073	0.921
DC3000/delta hrp 6h	0.72176	0.95
DC3000/delta hrp 12h	1.04544	1
DC3000/delta hrp 24h	0.9841	0.945

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.97839	1
Exp 36h	0.84531	0.539
Exp 60h	0.7679	0.249

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	1.12133	0.189
Var 12h NI row2-row1	0.71823
Var 36h I row2-row1	1.18624	1
Var 36h NI row2-row1	0.97524	0.852
Var 60h I row2-row1	1.31849
Var 60h NI row2-row1	1.12017	1
Time course 0hI-0hNI	0.98655	1
Time course 12hI-12hNI	0.91799	0.454
Time course 36hI-36hNI	1.04788
Time course 60hI-60hNI	0.83925	0.047

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)	2.03726	0.511
transgenic ySAMdc/azygous control (breaker)	1.27533	1
transgenic ySAMdc/azygous control (red)	1.04001	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99441	0.806

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.26895	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.92257	1
Manapal/WT (break)	1.10733	1
Manapal/WT (red)	0.75737	0.274