Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.8.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10344	0.812
27DAP/17DAP	1.15913	0.881
39DAP/27DAP	0.67919	0.241
41DAP/39DAP	1.30311	0.38
42DAP/41DAP	0.92498	1
43DAP/42DAP	1.09705	1
47DAP/43DAP	0.96826	0.794
52DAP/47DAP	1.27558	0.619
57DAP/52DAP	0.94417	0.938

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0516	0.35
17DAP/reference	1.06405	0.068
27DAP/reference	1.03496	0.348
39DAP/reference	1.0585	0.249
41DAP/reference	1.03751	0.451
42DAP/reference	0.96706	0.078
43DAP/reference	1.0514	0.403
47DAP/reference	0.95508	0.127
52DAP/reference	0.92213	0.152
57DAP/reference	0.85247	0.023

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03355	0.797
27DAP/17DAP	0.89915	0.172
39DAP/27DAP	0.95572	0.737
41DAP/39DAP	1.01262	1
42DAP/41DAP	1.25384	0.111
43DAP/42DAP	1.05153	0.446
47DAP/43DAP	0.98503	0.939
52DAP/47DAP	1.31738	0.29
57DAP/52DAP	1.26658	0.219
57DAP/7DAP	1.12548	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.56212	0.086
17DAP/reference	1.06146	1
27DAP/reference	0.84167	0.135
39DAP/reference	0.96024	0.411
41DAP/reference	0.79317	0.133
42DAP/reference	0.96518	0.458
43DAP/reference	0.8475	0.121
47DAP/reference	0.86852	0.293
52DAP/reference	1.06474	1
57DAP/reference	1.06209	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94634	0.564
17DAP/reference	0.95015	0.201
27DAP/reference	0.88491	0.181
39DAP/reference	0.93267	0.227
41DAP/reference	0.86076	0.06
42DAP/reference	0.88496	0.098
43DAP/reference	0.90819	0.292
47DAP/reference	0.96866	0.319
52DAP/reference	0.98113	0.407
57DAP/reference	1.05266	0.494

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00738	0.75
17DAP/reference	0.9482	0.601
27DAP/reference	0.79471
39DAP/reference	0.95573	0.199
41DAP/reference	0.73121	0.07
42DAP/reference	0.63272	0.014
43DAP/reference	0.83767	0.143
47DAP/reference	0.89478	0.191
52DAP/reference	1.17215	0.534
57DAP/reference	0.67039	0.02

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9949	1
26DAP/20DAP	0.89728	1
34DAP/26DAP	1.31541	1
51DAP/34DAP	1.03608	1
52DAP/51DAP	1.47233	0.15
53DAP/52DAP	0.92749	0.663
55DAP/53DAP	1.32246	0.131
57DAP/55DAP	0.74434	0.187
62DAP/57DAP	1.30983	0.445
68DAP/62DAP	1.11245	0.7
68DAP/14DAP	0.96661	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.59898	0.036

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.81886	0.256
Immature Eggplant/Mature Eggplant	7.86149	0.05
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	1.02603	1
1-1-2/M82	0.95281	1
12-2/M82	1.05916	1
12-4/M82	0.9048	1
1-3/M82	0.82864	0.501
2-1-1/M82	1.17067	0.764
2-1/M82	N/A	N/A
2-6/M82	1.06666	0.505
3-2/M82	0.94548	1
4-1-1/M82	1.00215	1
4-1/M82	1.09217	1
4-3-2/M82	0.91029	1
4-3/M82	1.05472	1
5-3/M82	0.86673	0.642
6-2/M82	0.91514	1
6-3/M82	0.99769	1
7-1/M82	1.01203	1
7-2/M82	1.02814	1
9-3-2/M82	0.81261	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.745	0.478
IL1-4/WTpooled	1.28335	0.426
WT/WTpooled	1.16058	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	1.75495

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94556	0.642
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.06499	1
DC3000/delta hrp 24h	1.09296	0.502

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.26338	0.068
DC3000 delta B/DC3000 delta AB	1.16637	0.412

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.91642	1
Exp 36h	N/A	N/A
Exp 60h	0.979	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00297	1
Var 0h	0.88561	1
Var 12h I row2-row1	0.83676	0.627
Var 12h NI row2-row1	1.00193	1
Var 36h I row2-row1	1.0743	1
Var 36h NI row2-row1	1.26233	0.482
Var 60h I row2-row1	0.95749	1
Var 60h NI row2-row1	0.99616	1
Time course 0hI-0hNI	0.94063	0.665
Time course 12hI-12hNI	0.95297	0.759
Time course 36hI-36hNI	0.80349	0.084
Time course 60hI-60hNI	0.57095	0.006

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)	1.89822	1
transgenic ySAMdc/azygous control (red)	1.53682	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.93974	0.04

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.04754	1

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)	0.82093	1
Manapal/WT (red)	0.91899	0.607