Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.9.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09287	0.681
27DAP/17DAP	1.19287	0.808
39DAP/27DAP	1.59357	0.071
41DAP/39DAP	0.87516	0.506
42DAP/41DAP	1.03392	1
43DAP/42DAP	1.00467	0.937
47DAP/43DAP	1.24336	0.769
52DAP/47DAP	1.09346	0.984
57DAP/52DAP	1.09982	0.827

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30706	0.01
17DAP/reference	1.11439	0.369
27DAP/reference	1.1158	0.314
39DAP/reference	1.26417	0.072
41DAP/reference	1.17231	0.203
42DAP/reference	1.32942	0.006
43DAP/reference	1.60647	0.008
47DAP/reference	1.72952	0.001
52DAP/reference	1.14307	0.072
57DAP/reference	1.2943	0.015

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09839	0.111
27DAP/17DAP	1.01295	1
39DAP/27DAP	0.90043	0.123
41DAP/39DAP	0.9053	0.747
42DAP/41DAP	1.16173	0.172
43DAP/42DAP	1.29042	0.024
47DAP/43DAP	0.89554	0.297
52DAP/47DAP	0.89124	0.183
57DAP/52DAP	1.0139	0.897
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.3529	0.046
17DAP/reference	1.12187	0.102
27DAP/reference	1.19978	0.02
39DAP/reference	1.33085	0.006
41DAP/reference	1.23225	0.018
42DAP/reference	1.47955	0.018
43DAP/reference	1.62297	0.006
47DAP/reference	1.85307	0.015
52DAP/reference	1.9917	0.007
57DAP/reference	1.3231	0.005

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08351	0.719
17DAP/reference	1.28438	0.143
27DAP/reference	1.11611	0.715
39DAP/reference	1.22247	0.09
41DAP/reference	1.12083	0.48
42DAP/reference	1.04495	1
43DAP/reference	0.88318	0.229
47DAP/reference	1.22655	0.081
52DAP/reference	0.83241	0.007
57DAP/reference	1.14064	0.494

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11507	0.377
17DAP/reference	0.99104	0.751
27DAP/reference	1.06277	0.373
39DAP/reference	1.37031	0.005
41DAP/reference	1.08978	0.129
42DAP/reference	1.29281	0.027
43DAP/reference	1.21144	0.131
47DAP/reference	1.33567	0.027
52DAP/reference	1.39972	0.077
57DAP/reference	1.46715	0.063

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05184	1
26DAP/20DAP	1.45855	0.399
34DAP/26DAP	0.99629	1
51DAP/34DAP	0.89154	0.504
52DAP/51DAP	0.84274	1
53DAP/52DAP	1.68151	0.58
55DAP/53DAP	0.91513	0.619
57DAP/55DAP	1.22481	0.764
62DAP/57DAP	0.78411	0.002
68DAP/62DAP	1.23686	0.689
68DAP/14DAP	0.69372

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.51834	0.113

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.71754	0.204
Mature Green Tomato/Ripe Tomato	0.97653	0.715
Immature Eggplant/Mature Eggplant	0.79713	0.092
Ripe Pepper/Ripe Tomato	1.03737	1
Mature Eggplant/Ripe Tomato	0.26531	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.996	1
1-1-2/M82	1.09166	1
12-2/M82	0.69368
12-4/M82	1.04806	1
1-3/M82	1.67968	0.277
2-1-1/M82	1.09383
2-1/M82	N/A	N/A
2-6/M82	1.0743
3-2/M82	1.07994
4-1-1/M82	1.31981	0.968
4-1/M82	N/A	N/A
4-3-2/M82	1.62685	0.241
4-3/M82	1.36947	1
5-3/M82	1.13205	1
6-2/M82	N/A	N/A
6-3/M82	0.68516	0.543
7-1/M82	0.99823	1
7-2/M82	1.23108	1
9-3-2/M82	1.25057

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.7446	0.277
IL2-6/WTpooled	0.96021	1
IL7-5/WTpooled	0.89271	1
IL7-3/WTpooled	1.25404	0.362
IL12-4/WTpooled	1.17471	0.624
IL1-4/WTpooled	1.03775	1
WT/WTpooled	0.98902	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	1.03238	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10227	0.921
DC3000/delta hrp 6h	0.85424	0.95
DC3000/delta hrp 12h	0.95611	1
DC3000/delta hrp 24h	1.21527	0.322

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.91214
DC3000 delta B/DC3000 delta AB	1.05394	0.646

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.13918	1
Exp 36h	1.01332	0.943
Exp 60h	0.98784	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0036	1
Var 0h	1.26715	0.936
Var 12h I row2-row1	0.96779	0.705
Var 12h NI row2-row1	0.95288	0.906
Var 36h I row2-row1	1.05487	0.339
Var 36h NI row2-row1	0.7945	0.61
Var 60h I row2-row1	0.94642	0.952
Var 60h NI row2-row1	0.90525	0.756
Time course 0hI-0hNI	1.05837	0.63
Time course 12hI-12hNI	0.98057	0.806
Time course 36hI-36hNI	1.02686	0.874
Time course 60hI-60hNI	1.417	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)	0.87867	0.377
transgenic ySAMdc/azygous control (breaker)	1.11708	1
transgenic ySAMdc/azygous control (red)	1.12234	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.18683	0.17

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.12658	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.65075	0.172
Manapal/WT (break)	0.80772	0.299
Manapal/WT (red)	1.09356	1