Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.9.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.36854	0.303
27DAP/17DAP	1.02808	1
39DAP/27DAP	1.16025	0.765
41DAP/39DAP	0.80328	0.32
42DAP/41DAP	1.33607	0.66
43DAP/42DAP	1.18317	0.954
47DAP/43DAP	1.26024	0.68
52DAP/47DAP	1.01441	0.948
57DAP/52DAP	1.10608	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94957	0.326
17DAP/reference	0.91555	0.393
27DAP/reference	0.93287	0.428
39DAP/reference	0.9892	0.651
41DAP/reference	0.77165	0.085
42DAP/reference	1.23994	0.398
43DAP/reference	0.98994	0.785
47DAP/reference	1.03197	1
52DAP/reference	0.89088	0.202
57DAP/reference	1.04375	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.34558	0.072
27DAP/17DAP	1.02919	1
39DAP/27DAP	1.24629	0.553
41DAP/39DAP	0.92981	0.822
42DAP/41DAP	1.1346	0.571
43DAP/42DAP	1.45513	0.013
47DAP/43DAP	0.93268	0.554
52DAP/47DAP	0.98085	0.917
57DAP/52DAP	1.15281	0.65
57DAP/7DAP	2.04557	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.68225	0.029
17DAP/reference	1.41926	0.007
27DAP/reference	1.29411	0.008
39DAP/reference	1.00132	1
41DAP/reference	1.10046	0.524
42DAP/reference	1.42201	0.012
43DAP/reference	1.2151	0.013
47DAP/reference	1.21078	0.37
52DAP/reference	1.218	0.139
57DAP/reference	1.1927	0.018

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04878	0.993
17DAP/reference	1.25109	0.338
27DAP/reference	1.29987	0.087
39DAP/reference	1.08374	1
41DAP/reference	1.15413	0.502
42DAP/reference	1.22125	0.359
43DAP/reference	1.19316	0.547
47DAP/reference	1.12336	0.467
52DAP/reference	0.88538	0.22
57DAP/reference	0.92794	0.384

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.10169	0.015
17DAP/reference	1.31811	0.531
27DAP/reference	1.08061	0.721
39DAP/reference	1.14811	0.182
41DAP/reference	1.04661	0.57
42DAP/reference	1.20823	0.265
43DAP/reference	0.89449	0.197
47DAP/reference	0.85364	0.057
52DAP/reference	0.99205	0.69
57DAP/reference	1.21384	0.401

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.24978	0.966
26DAP/20DAP	1.30334	0.208
34DAP/26DAP	1.0378	1
51DAP/34DAP	1.98182	0.032
52DAP/51DAP	0.91636	1
53DAP/52DAP	1.04877	1
55DAP/53DAP	0.94142	0.675
57DAP/55DAP	1.55871	0.231
62DAP/57DAP	1.00419	0.994
68DAP/62DAP	1.48729	0.589
68DAP/14DAP	1.5061	0.069

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.60257	0.022

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.88263	0.527
Mature Green Tomato/Ripe Tomato	0.57237	0.033
Immature Eggplant/Mature Eggplant	1.33637	0.321
Ripe Pepper/Ripe Tomato	2.3325	1
Mature Eggplant/Ripe Tomato	0.58501

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.20441	1
12-2/M82	0.65023
12-4/M82	1.06453	1
1-3/M82	N/A	N/A
2-1-1/M82	0.94258	0.784
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.55066
4-1-1/M82	N/A	N/A
4-1/M82	1.64642
4-3-2/M82	0.91234	0.487
4-3/M82	0.78739	1
5-3/M82	1.0547	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.82013	0.443
7-2/M82	N/A	N/A
9-3-2/M82	1.71142	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.67846	0.243
IL2-6/WTpooled	1.0164	1
IL7-5/WTpooled	0.56386	1
IL7-3/WTpooled	0.91841	0.31
IL12-4/WTpooled	0.96027	0.71
IL1-4/WTpooled	0.9635	0.699
WT/WTpooled	1.05761	0.911

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	0.81425	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04038	1
DC3000/delta hrp 6h	0.96151	0.95
DC3000/delta hrp 12h	0.95545	1
DC3000/delta hrp 24h	0.70648	0.065

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.60559	0.043
DC3000 delta B/DC3000 delta AB	0.83532	0.05

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.91752	1
Exp 36h	0.87937	0.661
Exp 60h	0.76233	0.454

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

hybridization	ratio	FDR (corrected p value)
self-self	1.08554	1
Var 0h	1.05315	1
Var 12h I row2-row1	0.97312	0.948
Var 12h NI row2-row1	1.03099	1
Var 36h I row2-row1	1.09715	1
Var 36h NI row2-row1	0.88908	0.743
Var 60h I row2-row1	0.83234	0.287
Var 60h NI row2-row1	1.15614	0.904
Time course 0hI-0hNI	0.98648	0.955
Time course 12hI-12hNI	1.03603	0.811
Time course 36hI-36hNI	0.98864	0.632
Time course 60hI-60hNI	0.62053	0.011

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)	1.25284	0.272
transgenic ySAMdc/azygous control (breaker)	1.01568	1
transgenic ySAMdc/azygous control (red)	1.03387	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.28409	0.155

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.06677	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.09548	1
Manapal/WT (break)	1.43997	0.183
Manapal/WT (red)	1.35125	0.413