Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.19.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.79139	0.278
27DAP/17DAP	1.49212	0.683
39DAP/27DAP	0.85777	0.549
41DAP/39DAP	1.11616	0.649
42DAP/41DAP	1.21128	0.852
43DAP/42DAP	1.55724	0.728
47DAP/43DAP	1.25598	0.563
52DAP/47DAP	1.19139	0.926
57DAP/52DAP	0.84534	0.772

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76722	0.026
17DAP/reference	0.99307	0.819
27DAP/reference	0.89267	0.119
39DAP/reference	0.96317	0.554
41DAP/reference	0.82089	0.049
42DAP/reference	0.90277	0.02
43DAP/reference	1.01566	0.982
47DAP/reference	0.95083	0.3
52DAP/reference	0.99501	0.618
57DAP/reference	0.94741	0.377

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.64424	0.194
27DAP/17DAP	1.00525	0.969
39DAP/27DAP	1.25074	0.845
41DAP/39DAP	1.36888	0.14
42DAP/41DAP	0.74902	0.149
43DAP/42DAP	1.10691	1
47DAP/43DAP	1.0129	1
52DAP/47DAP	1.02991	0.93
57DAP/52DAP	0.96625	0.753
57DAP/7DAP	1.04764	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.84464	0.112
17DAP/reference	1.50044	0.007
27DAP/reference	3.17204	0.007
39DAP/reference	1.46431	0.012
41DAP/reference	2.7592	0.01
42DAP/reference	3.37613	0.006
43DAP/reference	3.44141	0.004
47DAP/reference	1.94904	0.214
52DAP/reference	2.84898	0.007
57DAP/reference	1.21535	0.076

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9114	0.374
17DAP/reference	0.75058	0.037
27DAP/reference	0.9626	0.467
39DAP/reference	0.81277	0.025
41DAP/reference	0.77012	0.014
42DAP/reference	0.74428	0.025
43DAP/reference	0.659	0.009
47DAP/reference	0.91186	0.087
52DAP/reference	0.88062	0.047
57DAP/reference	0.80802	0.023

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.24141	0.07
17DAP/reference	1.22379	0.398
27DAP/reference	2.40327	0.023
39DAP/reference	2.19504	0.097
41DAP/reference	1.81373	0.015
42DAP/reference	2.70997	0.08
43DAP/reference	2.06298	0.123
47DAP/reference	0.93316	0.207
52DAP/reference	0.99605	0.781
57DAP/reference	0.8841	0.293

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.93723	1
26DAP/20DAP	0.90616	1
34DAP/26DAP	1.15657	1
51DAP/34DAP	0.81247
52DAP/51DAP	1.33742	0.904
53DAP/52DAP	0.84899	0.587
55DAP/53DAP	0.91109	0.82
57DAP/55DAP	1.09028	0.969
62DAP/57DAP	1.73993	0.902
68DAP/62DAP	1.12626	0.912
68DAP/14DAP	2.13572	0.328

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.49795	0.74

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.51931	1
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	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
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	0.70571
IL2-6/WTpooled	0.89302	0.337
IL7-5/WTpooled	1.46203	0.67
IL7-3/WTpooled	0.91475
IL12-4/WTpooled	0.82677	0.71
IL1-4/WTpooled	0.76085	0.476
WT/WTpooled	1.08936	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	1.13563	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.14074	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.77349	1
DC3000/delta hrp 24h	3.12278

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	0.99495	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03004	1
Var 0h	1.08866	0.782
Var 12h I row2-row1	0.82181	0.418
Var 12h NI row2-row1	1.14071	0.649
Var 36h I row2-row1	0.69964	1
Var 36h NI row2-row1	0.73049	0.584
Var 60h I row2-row1	0.76685	0.285
Var 60h NI row2-row1	0.9574	1
Time course 0hI-0hNI	0.89766	0.867
Time course 12hI-12hNI	0.90062	0.144
Time course 36hI-36hNI	1.44236	0.799
Time course 60hI-60hNI	2.70729	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)	25.7239	0.541
transgenic ySAMdc/azygous control (breaker)	0.93503	1
transgenic ySAMdc/azygous control (red)	1.04629	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05524	0.041

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.06529	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.19852	0.14
Manapal/WT (break)	1.12961	1
Manapal/WT (red)	1.3566	0.15