Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.9.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02055	0.858
27DAP/17DAP	1.25898	0.793
39DAP/27DAP	0.8799	0.495
41DAP/39DAP	1.0073	0.992
42DAP/41DAP	0.94564	1
43DAP/42DAP	1.08612	0.985
47DAP/43DAP	1.3778	0.394
52DAP/47DAP	0.7386	0.37
57DAP/52DAP	1.0287	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08126	0.544
17DAP/reference	0.94323	0.393
27DAP/reference	1.30026	0.061
39DAP/reference	1.34606	0.061
41DAP/reference	1.13378	0.421
42DAP/reference	0.91108	0.019
43DAP/reference	1.05578	0.269
47DAP/reference	0.93007	0.098
52DAP/reference	1.21697	0.083
57DAP/reference	1.11473	0.127

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93434	0.509
27DAP/17DAP	1.02762	0.909
39DAP/27DAP	1.05398	0.505
41DAP/39DAP	1.00038	1
42DAP/41DAP	0.99697	0.907
43DAP/42DAP	1.07415	0.061
47DAP/43DAP	0.96811	0.805
52DAP/47DAP	1.0634	0.749
57DAP/52DAP	1.02975	0.877
57DAP/7DAP	0.93233	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91733	0.168
17DAP/reference	0.85727	0.021
27DAP/reference	0.94238	0.231
39DAP/reference	0.90141	0.095
41DAP/reference	0.94697	0.357
42DAP/reference	1.06809	0.686
43DAP/reference	1.05003	0.83
47DAP/reference	0.85316	0.101
52DAP/reference	0.98451	0.571
57DAP/reference	0.92808	0.215

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31342	0.097
17DAP/reference	0.98415	0.576
27DAP/reference	1.03657	1
39DAP/reference	1.03941	0.912
41DAP/reference	1.00612	0.666
42DAP/reference	1.05274	0.915
43DAP/reference	1.50877	0.226
47DAP/reference	1.03473	0.527
52DAP/reference	1.03499	0.838
57DAP/reference	0.98981	0.649

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02891	0.709
17DAP/reference	1.05442	0.631
27DAP/reference	0.90489	0.206
39DAP/reference	1.13952	0.227
41DAP/reference	0.88756	0.167
42DAP/reference	0.9456	0.287
43DAP/reference	0.81885	0.046
47DAP/reference	1.10737	0.028
52DAP/reference	0.93131	0.424
57DAP/reference	1.13038	0.436

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.17203	0.966
26DAP/20DAP	0.91347	0.512
34DAP/26DAP	1.04994	1
51DAP/34DAP	1.03202	0.909
52DAP/51DAP	0.9179	1
53DAP/52DAP	1.04021	0.845
55DAP/53DAP	0.98083	0.838
57DAP/55DAP	1.20209	0.826
62DAP/57DAP	0.98439	0.994
68DAP/62DAP	0.99161	0.863
68DAP/14DAP	0.90974	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91597	0.102

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.4317	0.116
Mature Green Tomato/Ripe Tomato	0.83215	0.079
Immature Eggplant/Mature Eggplant	0.92768
Ripe Pepper/Ripe Tomato	2.7512	0.256
Mature Eggplant/Ripe Tomato	0.63157	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.44962	0.551
1-1-2/M82	1.06987	1
12-2/M82	0.77486	0.692
12-4/M82	1.01622	1
1-3/M82	0.98782	1
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.42831	0.452
3-2/M82	1.24963
4-1-1/M82	1.21081	1
4-1/M82	0.98328	1
4-3-2/M82	1.00686	1
4-3/M82	1.17586
5-3/M82	1.04919	1
6-2/M82	1.02601
6-3/M82	0.97686	1
7-1/M82	1.17284	1
7-2/M82	N/A	N/A
9-3-2/M82	0.93081	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.94317	1
IL2-6/WTpooled	1.27326	0.395
IL7-5/WTpooled	1.16325	0.792
IL7-3/WTpooled	1.1397	1
IL12-4/WTpooled	0.93658	0.71
IL1-4/WTpooled	0.93522	0.699
WT/WTpooled	1.02901	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	0.94833	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92198	1
DC3000/delta hrp 6h	1.01525	0.95
DC3000/delta hrp 12h	0.89426	1
DC3000/delta hrp 24h	1.03569	0.779

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.94247	0.691
DC3000 delta B/DC3000 delta AB	1.06858	0.437

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06524	1
Exp 36h	0.74804	0.699
Exp 60h	0.65886	0.32

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04636	1
Var 0h	0.9679	1
Var 12h I row2-row1	0.8665	0.418
Var 12h NI row2-row1	0.92802	0.713
Var 36h I row2-row1	1.13445	0.908
Var 36h NI row2-row1	0.98083	0.645
Var 60h I row2-row1	1.04685	1
Var 60h NI row2-row1	0.98239	1
Time course 0hI-0hNI	1.04589	0.719
Time course 12hI-12hNI	1.00758	0.842
Time course 36hI-36hNI	1.07267	0.166
Time course 60hI-60hNI	1.06767	0.302

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)	1.04124	0.863
transgenic ySAMdc/azygous control (breaker)	1.12728	0.166
transgenic ySAMdc/azygous control (red)	1.10994	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97644	0.242

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.24873	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.06236	0.096
Manapal/WT (break)	1.48588	0.183
Manapal/WT (red)	0.94346	0.728