Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.6.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.58185	0.09
27DAP/17DAP	1.22969	0.902
39DAP/27DAP	0.73027	0.449
41DAP/39DAP	1.03514	0.919
42DAP/41DAP	1.33447	0.573
43DAP/42DAP	1.08012	1
47DAP/43DAP	0.71827	0.248
52DAP/47DAP	1.48282	0.578
57DAP/52DAP	0.78872	0.779

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89973	0.073
17DAP/reference	1.01754	0.585
27DAP/reference	1.01201	1
39DAP/reference	1.04995	0.504
41DAP/reference	1.06807	0.393
42DAP/reference	0.8795	0.02
43DAP/reference	1.0352	0.617
47DAP/reference	0.89194	0.006
52DAP/reference	0.85753	0.183
57DAP/reference	0.86656	0.082

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.28362	0.605
27DAP/17DAP	0.86094	0.648
39DAP/27DAP	0.50886	0.035
41DAP/39DAP	1.75717	0.021
42DAP/41DAP	0.97958	0.687
43DAP/42DAP	1.2108	0.122
47DAP/43DAP	1.14654	0.144
52DAP/47DAP	1.72057	0.441
57DAP/52DAP	2.82096	0.029
57DAP/7DAP	1.1984	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12498	0.761
17DAP/reference	0.94266	0.338
27DAP/reference	1.06963	0.453
39DAP/reference	1.26314	0.267
41DAP/reference	1.35234	0.046
42DAP/reference	1.16238	0.534
43DAP/reference	1.78546	0.008
47DAP/reference	0.98262	0.671
52DAP/reference	1.42887	0.048
57DAP/reference	1.10542	0.654

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08749	0.582
17DAP/reference	0.93987	0.347
27DAP/reference	0.84104	0.144
39DAP/reference	0.8423	0.14
41DAP/reference	0.77567	0.023
42DAP/reference	0.96601	0.433
43DAP/reference	0.87422	0.147
47DAP/reference	0.93858	0.123
52DAP/reference	0.94734	0.22
57DAP/reference	1.01843	0.908

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99687	0.699
17DAP/reference	0.97372	0.739
27DAP/reference	1.12524	0.467
39DAP/reference	1.02477
41DAP/reference	1.12013	1
42DAP/reference	0.63633	0.172
43DAP/reference	1.06027	0.738
47DAP/reference	0.93608	0.371
52DAP/reference	0.84312	0.342
57DAP/reference	0.7557	0.077

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07495	0.786
26DAP/20DAP	1.43231	0.305
34DAP/26DAP	1.03223	1
51DAP/34DAP	0.61321	0.074
52DAP/51DAP	1.19013	0.708
53DAP/52DAP	0.76355	0.323
55DAP/53DAP	0.72433	0.144
57DAP/55DAP	1.19117	0.088
62DAP/57DAP	0.9402
68DAP/62DAP	1.06858	1
68DAP/14DAP	1.00977	0.889

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.04209	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.73154	0.132
Immature Eggplant/Mature Eggplant	1.13654	0.136
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.54316	0.26

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	1.27864	0.277
IL2-6/WTpooled	0.71471	0.473
IL7-5/WTpooled	0.79895	1
IL7-3/WTpooled	1.2701	1
IL12-4/WTpooled	0.79387	0.581
IL1-4/WTpooled	0.9752	1
WT/WTpooled	0.99242	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	0.83834	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9081	0.868
DC3000/delta hrp 6h	0.78237	0.95
DC3000/delta hrp 12h	1.07863	1
DC3000/delta hrp 24h	0.46948	0.037

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	0.498	0.189

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.2625	1
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99814	1
Var 0h	2.33729	1
Var 12h I row2-row1	0.72076	0.338
Var 12h NI row2-row1	0.98182	1
Var 36h I row2-row1	0.8705	0.805
Var 36h NI row2-row1	1.3643	1
Var 60h I row2-row1	1.06826	1
Var 60h NI row2-row1	1.38144	0.691
Time course 0hI-0hNI	0.91	0.415
Time course 12hI-12hNI	0.78109	0.033
Time course 36hI-36hNI	0.58838	0.026
Time course 60hI-60hNI	0.12411	0.005

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)	1.06548	0.455
transgenic ySAMdc/azygous control (breaker)	1.3277	0.172
transgenic ySAMdc/azygous control (red)	1.0466	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99225	0.757

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.00772	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.76781	1
Manapal/WT (break)	1.0469	1
Manapal/WT (red)	0.7281	0.424