Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.17.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.31067	0.477
27DAP/17DAP	0.78597	0.499
39DAP/27DAP	1.18161	0.768
41DAP/39DAP	0.95506	0.824
42DAP/41DAP	1.14411	0.929
43DAP/42DAP	1.20399	0.799
47DAP/43DAP	0.83574	0.492
52DAP/47DAP	0.87435	0.651
57DAP/52DAP	1.13806	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99381	0.743
17DAP/reference	1.04496	1
27DAP/reference	1.17867	0.539
39DAP/reference	1.17882	0.294
41DAP/reference	0.93139	0.542
42DAP/reference	1.01298	0.688
43DAP/reference	1.00108	0.745
47DAP/reference	1.04003	0.885
52DAP/reference	1.14606	0.272
57DAP/reference	0.98053	0.58

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.4599	0.264
27DAP/17DAP	1.27899	0.426
39DAP/27DAP	1.00262	0.977
41DAP/39DAP	1.45139	0.641
42DAP/41DAP	1.08221	0.845
43DAP/42DAP	1.14565	1
47DAP/43DAP	1.08482	0.664
52DAP/47DAP	0.90495	0.777
57DAP/52DAP	1.25311	0.688
57DAP/7DAP	2.20619	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87449	0.27
17DAP/reference	0.91771	0.338
27DAP/reference	1.13806	0.664
39DAP/reference	0.86564	0.073
41DAP/reference	0.90113	0.271
42DAP/reference	0.94699	0.338
43DAP/reference	0.87621	0.192
47DAP/reference	0.82158	0.293
52DAP/reference	0.71216	0.021
57DAP/reference	0.96811	0.411

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82249	0.051
17DAP/reference	0.97637	0.561
27DAP/reference	1.0353	0.686
39DAP/reference	1.12289	0.806
41DAP/reference	1.16768	0.344
42DAP/reference	1.36028	0.072
43DAP/reference	0.96218	0.527
47DAP/reference	1.12508	0.4
52DAP/reference	1.11257	0.417
57DAP/reference	1.06058	0.807

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87032	0.23
17DAP/reference	0.85531	0.348
27DAP/reference	0.89351	0.089
39DAP/reference	0.85182	0.076
41DAP/reference	0.9616	0.56
42DAP/reference	1.06562	1
43DAP/reference	1.00108	0.685
47DAP/reference	1.00554	0.731
52DAP/reference	0.9683	0.663
57DAP/reference	1.12078	0.452

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.80328	0.399
26DAP/20DAP	0.85499	1
34DAP/26DAP	1.84075	0.819
51DAP/34DAP	1.34113	0.854
52DAP/51DAP	1.32292	0.377
53DAP/52DAP	1.17569	0.858
55DAP/53DAP	0.92882	0.686
57DAP/55DAP	1.06322
62DAP/57DAP	0.83416	0.681
68DAP/62DAP	1.16689	0.539
68DAP/14DAP	0.81437	0.078

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.92166	0.493

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	2.83729
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	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.04894
IL2-6/WTpooled	1.22579	0.659
IL7-5/WTpooled	0.93404	1
IL7-3/WTpooled	0.98161	0.294
IL12-4/WTpooled	1.05278
IL1-4/WTpooled	1.06581	0.426
WT/WTpooled	1.02209	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	0.84032

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.43844	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.41225
DC3000/delta hrp 24h	0.86963	0.387

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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	1.05301	1
Var 0h	1.15137	1
Var 12h I row2-row1	1.74194
Var 12h NI row2-row1	1.80756	0.649
Var 36h I row2-row1	1.09767
Var 36h NI row2-row1	0.96409	1
Var 60h I row2-row1	1.13677
Var 60h NI row2-row1	0.95023	1
Time course 0hI-0hNI	1.1382	0.799
Time course 12hI-12hNI	0.76142	0.067
Time course 36hI-36hNI	1.16056	0.722
Time course 60hI-60hNI	0.90053	1

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)	2.10736	1
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.38586	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.35555	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.98901	1