Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.18.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8764	0.381
27DAP/17DAP	1.58331	0.836
39DAP/27DAP	2.57299	0.262
41DAP/39DAP	1.06906	0.781
42DAP/41DAP	0.93352	1
43DAP/42DAP	1.38625	0.799
47DAP/43DAP	0.92003	0.705
52DAP/47DAP	1.76673	0.242
57DAP/52DAP	1.46718	0.964

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10888	0.089
17DAP/reference	1.00981	0.813
27DAP/reference	1.05471	0.33
39DAP/reference	0.99227	0.885
41DAP/reference	0.96036	0.542
42DAP/reference	1.09171	0.005
43DAP/reference	1.08351	0.34
47DAP/reference	1.63945	0.001
52DAP/reference	1.28618	0.012
57DAP/reference	1.0904	0.147

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99778	0.899
27DAP/17DAP	0.9682	0.58
39DAP/27DAP	0.98221	0.887
41DAP/39DAP	1.00068	1
42DAP/41DAP	1.00021	0.934
43DAP/42DAP	0.99114	0.875
47DAP/43DAP	1.00622	0.957
52DAP/47DAP	0.953	0.677
57DAP/52DAP	1.06632	0.596
57DAP/7DAP	0.99177	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85924	0.06
17DAP/reference	0.92537	0.028
27DAP/reference	0.87703	0.01
39DAP/reference	0.91011	0.012
41DAP/reference	1.0383	0.402
42DAP/reference	1.18081	0.405
43DAP/reference	0.97211	0.44
47DAP/reference	0.93462	0.05
52DAP/reference	0.98216	0.523
57DAP/reference	1.05823	0.799

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05475	0.55
17DAP/reference	1.00686	0.979
27DAP/reference	1.02068	0.933
39DAP/reference	1.0509	0.806
41DAP/reference	0.95411	0.173
42DAP/reference	0.94989	0.212
43DAP/reference	0.92778	0.229
47DAP/reference	0.95322	0.227
52DAP/reference	0.96102	0.203
57DAP/reference	0.97034	0.519

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90052	0.052
17DAP/reference	0.94891	0.234
27DAP/reference	0.91323	0.048
39DAP/reference	0.89276	0.013
41DAP/reference	0.94191	0.132
42DAP/reference	0.89283	0.134
43DAP/reference	0.926	0.143
47DAP/reference	1.18129	0.06
52DAP/reference	0.9044	0.424
57DAP/reference	1.34991	0.025

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98922	1
26DAP/20DAP	1.00646	1
34DAP/26DAP	0.96985	0.763
51DAP/34DAP	0.98221	0.799
52DAP/51DAP	1.02287	0.808
53DAP/52DAP	1.13737	0.502
55DAP/53DAP	1.01205	0.981
57DAP/55DAP	0.98547	0.891
62DAP/57DAP	1.04477	0.723
68DAP/62DAP	1.1509	0.23
68DAP/14DAP	1.05549	0.826

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98196	0.635

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.09608	1
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.32552	0.142
Ripe Pepper/Ripe Tomato	0.05638	0.224
Mature Eggplant/Ripe Tomato	0.07825

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.07767	0.536
1-1-2/M82	0.97724	0.804
12-2/M82	0.951	0.74
12-4/M82	0.98988	1
1-3/M82	0.93049	0.378
2-1-1/M82	1.06461	0.764
2-1/M82	1.31531	0.345
2-6/M82	0.93557	1
3-2/M82	0.95905
4-1-1/M82	1.03016	1
4-1/M82	0.86254
4-3-2/M82	1.09635
4-3/M82	0.92505	1
5-3/M82	1.06319	0.572
6-2/M82	0.9754	1
6-3/M82	1.07545	1
7-1/M82	1.02272	0.598
7-2/M82	1.02692	1
9-3-2/M82	N/A	N/A

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	N/A	N/A
IL1-4/WTpooled	0.8612
WT/WTpooled	N/A	N/A

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	1.52988	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11856	0.692
DC3000/delta hrp 6h	0.92344	0.95
DC3000/delta hrp 12h	0.98279	1
DC3000/delta hrp 24h	1.03691	0.582

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.14911	0.05
DC3000 delta B/DC3000 delta AB	1.18624	0.176

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.26795	1
Exp 36h	2.61709	0.489
Exp 60h	2.85873	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99039	1
Var 0h	1.35727	0.374
Var 12h I row2-row1	1.09322	0.254
Var 12h NI row2-row1	1.12547	1
Var 36h I row2-row1	0.99391	1
Var 36h NI row2-row1	0.9454	0.706
Var 60h I row2-row1	1.08418	1
Var 60h NI row2-row1	1.0546	1
Time course 0hI-0hNI	1.09476	0.833
Time course 12hI-12hNI	1.05426	0.72
Time course 36hI-36hNI	1.13177	0.453
Time course 60hI-60hNI	1.69259	0.008

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)	1.0689	0.699
transgenic ySAMdc/azygous control (breaker)	1.39809	0.166
transgenic ySAMdc/azygous control (red)	1.14906	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96156	0.156

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.11172	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.87281	0.307
Manapal/WT (break)	0.86166	1
Manapal/WT (red)	0.74252	0.503