Tomato Functional Genomics Database (TFGD)

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Expression of 1-1-4.1.3.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00363	0.927
27DAP/17DAP	1.14251	0.859
39DAP/27DAP	0.97147	0.719
41DAP/39DAP	1.31579	0.326
42DAP/41DAP	0.95975	1
43DAP/42DAP	0.99253	0.937
47DAP/43DAP	0.88906	0.628
52DAP/47DAP	1.43489	0.371
57DAP/52DAP	0.99847	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29916	0.567
17DAP/reference	1.41878	0.012
27DAP/reference	1.04838	1
39DAP/reference	0.93427	0.6
41DAP/reference	1.77098	0.012
42DAP/reference	1.16717	0.608
43DAP/reference	1.12988	0.957
47DAP/reference	1.65908	0.018
52DAP/reference	1.43024	0.083
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9883	0.782
27DAP/17DAP	1.01112	0.973
39DAP/27DAP	1.02875	0.685
41DAP/39DAP	0.97901	0.98
42DAP/41DAP	0.99483	0.887
43DAP/42DAP	0.96849	0.558
47DAP/43DAP	1.00689	0.973
52DAP/47DAP	1.01642	0.945
57DAP/52DAP	0.933	0.514
57DAP/7DAP	1.08759	0.22

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9675	0.445
17DAP/reference	0.90894	0.016
27DAP/reference	0.94087	0.026
39DAP/reference	0.90793	0.014
41DAP/reference	0.91665	0.326
42DAP/reference	0.75763	0.01
43DAP/reference	0.86415	0.059
47DAP/reference	1.05997	0.932
52DAP/reference	0.83248	0.083
57DAP/reference	0.86457	0.061

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.36316	0.038
17DAP/reference	1.32722	0.049
27DAP/reference	1.34926	0.026
39DAP/reference	1.38057	0.011
41DAP/reference	1.32232	0.02
42DAP/reference	1.13607	0.455
43DAP/reference	1.25559	0.034
47DAP/reference	1.16654	0.105
52DAP/reference	1.3689	0.007
57DAP/reference	1.51777	0.008

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99244	0.653
17DAP/reference	1.18793	0.306
27DAP/reference	0.9522	0.108
39DAP/reference	1.04089	0.885
41DAP/reference	0.93983	0.058
42DAP/reference	1.07305	0.529
43DAP/reference	0.98514	0.66
47DAP/reference	1.26975	0.016
52DAP/reference	1.16538	0.583
57DAP/reference	1.08066	0.531

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12165	0.966
26DAP/20DAP	1.01895	1
34DAP/26DAP	0.9079	0.548
51DAP/34DAP	0.9655	0.698
52DAP/51DAP	0.97633	1
53DAP/52DAP	1.03962	0.858
55DAP/53DAP	0.96358	0.515
57DAP/55DAP	1.11365	0.927
62DAP/57DAP	0.67163	0.871
68DAP/62DAP	0.57571	0.29
68DAP/14DAP	1.04506	0.915

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9688	0.576

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.77998	0.132
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.50193	N/A
Mature Eggplant/Ripe Tomato	1.0963	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03927	1
1-1-2/M82	1.30197	N/A
12-2/M82	0.80413	N/A
12-4/M82	0.98982	1
1-3/M82	0.88322	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.03627	1
3-2/M82	N/A	N/A
4-1-1/M82	0.90149	N/A
4-1/M82	1.4149	N/A
4-3-2/M82	0.94102	1
4-3/M82	1.09991	N/A
5-3/M82	1.03791	1
6-2/M82	N/A	N/A
6-3/M82	1.08799	1
7-1/M82	0.90971	1
7-2/M82	1.127	0.385
9-3-2/M82	1.01789	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.86727	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.74566	0.792
IL7-3/WTpooled	1.03866	N/A
IL12-4/WTpooled	1.39435	0.557
IL1-4/WTpooled	0.92558	1
WT/WTpooled	1.00946	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	1.22546	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9716	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.24976	1
DC3000/delta hrp 24h	1.05137	0.604

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.18617	0.208
DC3000 delta B/DC3000 delta AB	1.0199	0.687

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	1.11218	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98731	1
Var 0h	0.96718	0.782
Var 12h I row2-row1	1.08607	0.506
Var 12h NI row2-row1	1.10418	1
Var 36h I row2-row1	1.02758	1
Var 36h NI row2-row1	0.82952	0.549
Var 60h I row2-row1	1.21427	1
Var 60h NI row2-row1	0.96968	1
Time course 0hI-0hNI	1.03197	0.852
Time course 12hI-12hNI	1.07771	0.43
Time course 36hI-36hNI	1.0674	0.513
Time course 60hI-60hNI	1.41157	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)	0.89562	0.567
transgenic ySAMdc/azygous control (breaker)	1.35564	0.248
transgenic ySAMdc/azygous control (red)	1.10418	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.81866	0.14

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.07531	0.307
Manapal/WT (break)	0.96879	1
Manapal/WT (red)	1.26681	1