Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.4.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14095	0.863
27DAP/17DAP	0.90251	0.801
39DAP/27DAP	0.79698	0.458
41DAP/39DAP	1.60751	0.451
42DAP/41DAP	1.30627	0.888
43DAP/42DAP	0.9841	0.912
47DAP/43DAP	0.75815	0.321
52DAP/47DAP	1.30226	0.965
57DAP/52DAP	0.82	0.727

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87222	0.074
17DAP/reference	1.05147	0.696
27DAP/reference	0.92922	0.395
39DAP/reference	1.24159	0.018
41DAP/reference	1.00776	1
42DAP/reference	0.96445	0.225
43DAP/reference	1.04101	0.899
47DAP/reference	0.98666	0.535
52DAP/reference	0.97279	0.504
57DAP/reference	1.16749	0.153

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96059	0.629
27DAP/17DAP	1.06781	0.798
39DAP/27DAP	1.09348	0.46
41DAP/39DAP	1.00629	0.986
42DAP/41DAP	0.97565	0.737
43DAP/42DAP	1.06735	0.478
47DAP/43DAP	1.0526	0.926
52DAP/47DAP	1.0509	0.915
57DAP/52DAP	0.98035	0.753
57DAP/7DAP	1.42733

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86503	0.183
17DAP/reference	0.86622	0.056
27DAP/reference	1.11737	0.246
39DAP/reference	1.02299	0.745
41DAP/reference	0.92703	0.284
42DAP/reference	0.71389	0.082
43DAP/reference	1.09422	0.511
47DAP/reference	0.91305	0.293
52DAP/reference	0.93651	0.304
57DAP/reference	1.03298	0.831

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.45845	0.569
17DAP/reference	0.88974	0.153
27DAP/reference	0.87106	0.195
39DAP/reference	1.02745	1
41DAP/reference	0.87783	0.284
42DAP/reference	1.05193	0.466
43DAP/reference	1.21372	0.817
47DAP/reference	1.06092	0.4
52DAP/reference	1.14681	0.3
57DAP/reference	0.96803	0.61

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86984	0.135
17DAP/reference	1.10415	0.641
27DAP/reference	0.92659	0.442
39DAP/reference	0.83261	0.04
41DAP/reference	1.05357	0.796
42DAP/reference	1.02019	1
43DAP/reference	0.82247	0.043
47DAP/reference	1.08806	0.405
52DAP/reference	0.85825	0.242
57DAP/reference	1.05731	0.924

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.52718	0.817
26DAP/20DAP	0.91911	1
34DAP/26DAP	0.99023	0.954
51DAP/34DAP	0.88369	0.402
52DAP/51DAP	1.07716	0.626
53DAP/52DAP	1.03646	0.797
55DAP/53DAP	1.05211	0.904
57DAP/55DAP	0.8539	0.731
62DAP/57DAP	0.97328	1
68DAP/62DAP	0.86904	0.787
68DAP/14DAP	0.81664	0.09

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.65651	0.062

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.78979	0.023
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	1.37458	0.742
1-1-2/M82	1.07209
12-2/M82	N/A	N/A
12-4/M82	1.22894
1-3/M82	N/A	N/A
2-1-1/M82	1.07681	0.689
2-1/M82	N/A	N/A
2-6/M82	0.89845	1
3-2/M82	1.05816
4-1-1/M82	N/A	N/A
4-1/M82	0.93896	1
4-3-2/M82	0.84576
4-3/M82	1.33749
5-3/M82	0.98933	1
6-2/M82	N/A	N/A
6-3/M82	1.26456	1
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	0.9447	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.02893	0.659
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.0149	1
IL12-4/WTpooled	0.94568	0.581
IL1-4/WTpooled	0.87712
WT/WTpooled	0.98195	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	0.72675	0.256

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01658	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.10721	1
DC3000/delta hrp 24h	0.99602	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.98205
DC3000 delta B/DC3000 delta AB	0.85806	0.162

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	N/A	N/A
Var 0h	0.8278
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	0.93866	0.454
transgenic ySAMdc/azygous control (breaker)	0.99596	1
transgenic ySAMdc/azygous control (red)	1.27811	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98832	0.404

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.88903	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.77061	0.172
Manapal/WT (break)	0.84238	1
Manapal/WT (red)	0.58326	0.181