Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.17.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12789	0.904
27DAP/17DAP	1.56276	0.825
39DAP/27DAP	0.95688	0.682
41DAP/39DAP	1.04495	0.788
42DAP/41DAP	0.96685	1
43DAP/42DAP	1.03856	0.937
47DAP/43DAP	1.35385	0.369
52DAP/47DAP	0.98346	0.786
57DAP/52DAP	1.40639	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97915	0.562
17DAP/reference	0.84052	0.011
27DAP/reference	0.88639	0.201
39DAP/reference	0.99855	0.991
41DAP/reference	0.87036	0.065
42DAP/reference	0.89827	0.029
43DAP/reference	0.96663	0.538
47DAP/reference	0.89918	0.03
52DAP/reference	1.04702	0.607
57DAP/reference	1.04531	0.529

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85689	0.131
27DAP/17DAP	1.19561	0.604
39DAP/27DAP	1.06092	0.659
41DAP/39DAP	1.08472	0.88
42DAP/41DAP	0.78654	0.447
43DAP/42DAP	1.39622	0.23
47DAP/43DAP	0.86871	0.543
52DAP/47DAP	1.05605	0.816
57DAP/52DAP	0.95043	0.745
57DAP/7DAP	1.15353	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81754	0.157
17DAP/reference	0.92759	0.253
27DAP/reference	0.96776	0.375
39DAP/reference	0.73536	0.018
41DAP/reference	1.01852	1
42DAP/reference	1.14541	0.233
43DAP/reference	0.97671	0.502
47DAP/reference	1.07075	0.791
52DAP/reference	1.03587	0.886
57DAP/reference	0.92006	0.199

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84897	0.124
17DAP/reference	0.78013	0.116
27DAP/reference	0.82198	0.084
39DAP/reference	0.88216	0.119
41DAP/reference	0.94535	0.331
42DAP/reference	0.99791	0.723
43DAP/reference	1.08732	0.919
47DAP/reference	0.86501	0.06
52DAP/reference	0.91773	0.131
57DAP/reference	0.79476	0.028

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84318	0.135
17DAP/reference	1.02292	0.887
27DAP/reference	0.97532	0.539
39DAP/reference	1.04292	0.546
41DAP/reference	0.97915	0.618
42DAP/reference	1.07624	0.556
43DAP/reference	0.83711	0.073
47DAP/reference	1.00234	0.754
52DAP/reference	0.87074	0.223
57DAP/reference	1.01054	1

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12299	0.966
26DAP/20DAP	1.01443	1
34DAP/26DAP	1.0972	1
51DAP/34DAP	1.12858
52DAP/51DAP	1.09392	0.776
53DAP/52DAP	1.30712	0.768
55DAP/53DAP	0.98614	0.838
57DAP/55DAP	1.83636	0.694
62DAP/57DAP	1.16315	0.622
68DAP/62DAP	1.11845	0.7
68DAP/14DAP	1.21714	0.802

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.99521	0.814

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.58491
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.54548
Mature Eggplant/Ripe Tomato	0.59266

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.05136
12-2/M82	N/A	N/A
12-4/M82	0.79595	0.282
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
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	N/A	N/A
5-3/M82	1.0002
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
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	0.52087
IL1-4/WTpooled	1.07621
WT/WTpooled	1.25206

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	1.22969	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.13489	0.921
DC3000/delta hrp 6h	0.63628
DC3000/delta hrp 12h	0.94983	1
DC3000/delta hrp 24h	1.17627	0.143

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	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	1.06159	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96321	1
Var 0h	0.91514	1
Var 12h I row2-row1	0.90169	0.77
Var 12h NI row2-row1	8.60116	1
Var 36h I row2-row1	0.87179	1
Var 36h NI row2-row1	1.17127	0.852
Var 60h I row2-row1	0.65395	0.285
Var 60h NI row2-row1	1.26789	1
Time course 0hI-0hNI	1.03617	0.852
Time course 12hI-12hNI	1.11543	0.237
Time course 36hI-36hNI	1.48833	0.056
Time course 60hI-60hNI	3.09135	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)	0.95181	0.348
transgenic ySAMdc/azygous control (breaker)	1.00894	1
transgenic ySAMdc/azygous control (red)	0.96413	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	1.05657	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.97063	1
Manapal/WT (break)	0.87487	1
Manapal/WT (red)	0.83994	0.424