Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.13.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.11542	0.014
27DAP/17DAP	1.06447	1
39DAP/27DAP	0.52013	0.328
41DAP/39DAP	1.04528	0.88
42DAP/41DAP	0.80972	1
43DAP/42DAP	0.85404	0.454
47DAP/43DAP	0.84905	0.522
52DAP/47DAP	1.41868	0.403
57DAP/52DAP	1.37972	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.61605	0.008
17DAP/reference	0.72762	0.033
27DAP/reference	0.66739	0.075
39DAP/reference	0.73484	0.072
41DAP/reference	0.66704	0.039
42DAP/reference	0.63659	0.001
43DAP/reference	0.82977	0.247
47DAP/reference	0.79078	0.035
52DAP/reference	0.60165	0.032
57DAP/reference	0.8692	0.086

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.12857	0.019
27DAP/17DAP	1.35435	0.042
39DAP/27DAP	0.57105	0.034
41DAP/39DAP	1.04909	0.887
42DAP/41DAP	0.78255	0.069
43DAP/42DAP	1.093	0.627
47DAP/43DAP	1.0167	0.985
52DAP/47DAP	1.10617	0.831
57DAP/52DAP	0.87878	0.584
57DAP/7DAP	0.19294	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.55193	0.036
17DAP/reference	0.71413	0.012
27DAP/reference	0.60107	0.01
39DAP/reference	0.53321	0.011
41DAP/reference	1.16826	0.678
42DAP/reference	0.49448	0.01
43DAP/reference	0.56327	0.011
47DAP/reference	0.6102	0.032
52DAP/reference	0.47828	0.013
57DAP/reference	0.43454	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.11724	0.043
17DAP/reference	0.55925	0.004
27DAP/reference	0.54001	0.009
39DAP/reference	0.48725	0.009
41DAP/reference	1.0115	0.57
42DAP/reference	0.62543	0.013
43DAP/reference	0.51456	0.003
47DAP/reference	0.72921	0.011
52DAP/reference	0.446	0.003
57DAP/reference	0.46684	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	3.21161	0.02
17DAP/reference	0.77302	0.141
27DAP/reference	0.63738	0.043
39DAP/reference	0.55955	0.008
41DAP/reference	0.63413	0.037
42DAP/reference	0.56078	0.016
43DAP/reference	0.53725	0.017
47DAP/reference	0.54291	0.004
52DAP/reference	0.87705	0.319
57DAP/reference	0.57768	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00522	1
26DAP/20DAP	1.56102	0.192
34DAP/26DAP	0.86092	0.488
51DAP/34DAP	0.44089	0.049
52DAP/51DAP	1.14412	0.954
53DAP/52DAP	0.95975	0.835
55DAP/53DAP	0.83379	0.619
57DAP/55DAP	1.08266	1
62DAP/57DAP	1.09244	1
68DAP/62DAP	0.92393	0.787
68DAP/14DAP	0.9005	0.086

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.95271	0.52

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	11.7043	0.058
Mature Green Tomato/Ripe Tomato	27.7811	0.016
Immature Eggplant/Mature Eggplant	2.15538	0.05
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	14.0016	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.88295
12-2/M82	N/A	N/A
12-4/M82	0.67933
1-3/M82	0.66405
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.08951	0.594
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	0.96885	0.642
6-2/M82	N/A	N/A
6-3/M82	1.64348
7-1/M82	N/A	N/A
7-2/M82	1.06924
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.69918	0.243
IL2-6/WTpooled	1.02579	1
IL7-5/WTpooled	0.53523	1
IL7-3/WTpooled	0.72753	0.31
IL12-4/WTpooled	0.93522	1
IL1-4/WTpooled	0.67176	0.444
WT/WTpooled	1.0046	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	0.40401	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08172	0.846
DC3000/delta hrp 6h	1.14523	1
DC3000/delta hrp 12h	0.56266	1
DC3000/delta hrp 24h	0.99186	0.455

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.18478	0.023
DC3000 delta B/DC3000 delta AB	0.16567	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01378	1
Exp 36h	1.05843	1
Exp 60h	0.76854	0.454

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

hybridization	ratio	FDR (corrected p value)
self-self	1.06235	1
Var 0h	0.96645	1
Var 12h I row2-row1	1.17567	0.283
Var 12h NI row2-row1	0.64753	0.349
Var 36h I row2-row1	0.79332	0.805
Var 36h NI row2-row1	1.17367	1
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	1.24213	0.904
Time course 0hI-0hNI	0.84711	0.142
Time course 12hI-12hNI	0.73071	0.125
Time course 36hI-36hNI	0.56719	0.065
Time course 60hI-60hNI	0.0186	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)	0.92463	0.409
transgenic ySAMdc/azygous control (breaker)	1.31012	0.248
transgenic ySAMdc/azygous control (red)	1.04148	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.14331	0.035

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.68455	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.63412	1
Manapal/WT (break)	0.76764	1
Manapal/WT (red)	0.64401	0.188