Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.10.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.2019	0.498
27DAP/17DAP	0.99158	1
39DAP/27DAP	1.12026	0.981
41DAP/39DAP	0.83977	0.409
42DAP/41DAP	0.89453	0.774
43DAP/42DAP	0.97022	0.912
47DAP/43DAP	0.8	0.41
52DAP/47DAP	1.05765	0.89
57DAP/52DAP	0.84264	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11866	0.126
17DAP/reference	1.19191	0.039
27DAP/reference	1.0096	0.923
39DAP/reference	1.10509	0.497
41DAP/reference	1.26707	0.015
42DAP/reference	1.06998	0.565
43DAP/reference	1.02626	0.957
47DAP/reference	1.08915	0.558
52DAP/reference	0.90016	0.131
57DAP/reference	0.88608	0.106

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09539	0.547
27DAP/17DAP	0.9519	0.782
39DAP/27DAP	0.92699	0.507
41DAP/39DAP	1.15981	0.565
42DAP/41DAP	1.0588	0.763
43DAP/42DAP	0.89786	0.28
47DAP/43DAP	0.87359	0.235
52DAP/47DAP	1.75985	0.085
57DAP/52DAP	1.89177	0.047
57DAP/7DAP	0.79423	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88048	0.168
17DAP/reference	0.96533	0.389
27DAP/reference	1.29347	0.035
39DAP/reference	0.82926	0.031
41DAP/reference	0.81389	0.082
42DAP/reference	0.6688	0.011
43DAP/reference	0.79549	0.031
47DAP/reference	0.8349	0.222
52DAP/reference	0.76377	0.014
57DAP/reference	0.76456	0.015

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29335	0.052
17DAP/reference	1.4595	0.01
27DAP/reference	1.37132	0.068
39DAP/reference	1.13934	0.891
41DAP/reference	1.05276	0.831
42DAP/reference	1.33347	0.035
43DAP/reference	1.9737	0.01
47DAP/reference	1.54179	0.008
52DAP/reference	1.2696	0.145
57DAP/reference	1.29481	0.214

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92893	0.197
17DAP/reference	1.13604	0.298
27DAP/reference	0.93904	0.133
39DAP/reference	0.95441	0.393
41DAP/reference	1.08779	0.425
42DAP/reference	1.02139	0.836
43DAP/reference	0.85173	0.12
47DAP/reference	1.15099	0.218
52DAP/reference	1.27033	0.335
57DAP/reference	1.00703	0.593

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.75496	0.611
26DAP/20DAP	1.12247	1
34DAP/26DAP	2.64526	0.819
51DAP/34DAP	0.9563	0.698
52DAP/51DAP	2.59383	0.04
53DAP/52DAP	0.7038	0.075
55DAP/53DAP	1.61583	0.046
57DAP/55DAP	0.69626	0.109
62DAP/57DAP	1.25121	0.393
68DAP/62DAP	1.74729	0.926
68DAP/14DAP	0.53051

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.40839	0.021

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.6042	0.814
Immature Eggplant/Mature Eggplant	N/A	N/A
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	1.06683	1
1-1-2/M82	0.95346	1
12-2/M82	1.20805	1
12-4/M82	0.99093	1
1-3/M82	0.79803	0.378
2-1-1/M82	N/A	N/A
2-1/M82	1.15815	1
2-6/M82	0.95431	1
3-2/M82	1.00572	1
4-1-1/M82	0.9346	1
4-1/M82	1.32476
4-3-2/M82	1.19996
4-3/M82	0.79673	1
5-3/M82	0.97524	1
6-2/M82	0.80232	0.481
6-3/M82	0.98565	1
7-1/M82	0.7631
7-2/M82	0.84708	0.599
9-3-2/M82	0.80715	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.16534	0.277
IL2-6/WTpooled	0.74636	0.383
IL7-5/WTpooled	0.83246	1
IL7-3/WTpooled	0.98277	1
IL12-4/WTpooled	1.30425	0.785
IL1-4/WTpooled	0.68963	0.457
WT/WTpooled	1.01292	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	1.13331	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08161	0.715
DC3000/delta hrp 6h	2.75589
DC3000/delta hrp 12h	1.11589	1
DC3000/delta hrp 24h	0.99723	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.27508	0.183
DC3000 delta B/DC3000 delta AB	1.36843	0.137

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	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	1.04319	1
Var 0h	1.03365	1
Var 12h I row2-row1	0.87137	0.627
Var 12h NI row2-row1	0.89084	0.713
Var 36h I row2-row1	1.12899	0.908
Var 36h NI row2-row1	1.06759	1
Var 60h I row2-row1	1.10229	0.543
Var 60h NI row2-row1	0.91549	0.756
Time course 0hI-0hNI	0.97999	0.911
Time course 12hI-12hNI	1.0182	1
Time course 36hI-36hNI	0.97146	0.504
Time course 60hI-60hNI	0.87442	0.026

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	3.67106	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00367	0.854

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.5698	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.97902	0.863