Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.2.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.58259	0.244
27DAP/17DAP	1.22518	0.841
39DAP/27DAP	0.96274	0.682
41DAP/39DAP	0.89056	0.641
42DAP/41DAP	0.95362	1
43DAP/42DAP	0.88668	0.639
47DAP/43DAP	0.93261	0.754
52DAP/47DAP	0.78847	0.475
57DAP/52DAP	1.01691	0.976

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94082	0.336
17DAP/reference	1.03491	0.384
27DAP/reference	1.10975	0.175
39DAP/reference	0.98256	0.828
41DAP/reference	0.88104	0.434
42DAP/reference	0.82986	0.009
43DAP/reference	1.16708	0.163
47DAP/reference	0.89688	0.116
52DAP/reference	1.03851	0.912
57DAP/reference	0.97414	0.58

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.81039	0.038
27DAP/17DAP	0.83878	0.508
39DAP/27DAP	1.20327	0.41
41DAP/39DAP	1.04675	0.883
42DAP/41DAP	1.35289	0.47
43DAP/42DAP	0.81675	0.085
47DAP/43DAP	1.104	0.822
52DAP/47DAP	1.26994	0.449
57DAP/52DAP	1.07019	1
57DAP/7DAP	2.53169

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02146	1
17DAP/reference	1.31592	0.059
27DAP/reference	1.35442	0.012
39DAP/reference	1.2934	0.025
41DAP/reference	1.30933	0.336
42DAP/reference	1.55749	0.018
43DAP/reference	1.54885	0.07
47DAP/reference	0.99575	1
52DAP/reference	1.1145	0.636
57DAP/reference	1.1072	0.41

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9967	0.848
17DAP/reference	0.76588	0.038
27DAP/reference	1.01995	1
39DAP/reference	1.02286	1
41DAP/reference	1.06373	0.925
42DAP/reference	0.92963	0.321
43DAP/reference	0.88907	0.181
47DAP/reference	0.81899	0.028
52DAP/reference	0.96909	0.433
57DAP/reference	0.88814	0.144

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15546	0.18
17DAP/reference	1.01064	0.81
27DAP/reference	1.36485	0.033
39DAP/reference	1.04416	0.633
41DAP/reference	1.25621	0.031
42DAP/reference	1.15778	0.416
43DAP/reference	0.98201	0.614
47DAP/reference	0.8814	0.097
52DAP/reference	1.26957	0.341
57DAP/reference	1.25773	0.043

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.86812	0.981
26DAP/20DAP	N/A	N/A
34DAP/26DAP	1.04352	1
51DAP/34DAP	1.79523	0.416
52DAP/51DAP	0.84194
53DAP/52DAP	1.56889	0.552
55DAP/53DAP	0.97228	0.894
57DAP/55DAP	0.91392	0.698
62DAP/57DAP	1.62212
68DAP/62DAP	1.34643	0.597
68DAP/14DAP	1.63474	0.027

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.15619	0.246

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.48575	0.224
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	0.92013
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	0.96249	1
6-2/M82	N/A	N/A
6-3/M82	1.16533
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	N/A	N/A
IL2-6/WTpooled	0.76862
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.89618
IL12-4/WTpooled	0.94113	1
IL1-4/WTpooled	1.18548
WT/WTpooled	0.95506	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	0.8927	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00695	1
DC3000/delta hrp 6h	0.95412	0.95
DC3000/delta hrp 12h	1.29704	1
DC3000/delta hrp 24h	1.05277	0.71

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.31847
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	0.93067	1
Exp 36h	N/A	N/A
Exp 60h	1.05951	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01109	1
Var 0h	1.0184	0.98
Var 12h I row2-row1	0.92043	0.418
Var 12h NI row2-row1	0.90916	0.906
Var 36h I row2-row1	0.84463	0.805
Var 36h NI row2-row1	0.92164
Var 60h I row2-row1	0.94497	0.285
Var 60h NI row2-row1	0.9831	1
Time course 0hI-0hNI	0.92575	0.489
Time course 12hI-12hNI	0.92619	0.402
Time course 36hI-36hNI	0.81976	0.045
Time course 60hI-60hNI	1.41667	0.033

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)	1.1058	0.748
transgenic ySAMdc/azygous control (breaker)	0.69963	0.137
transgenic ySAMdc/azygous control (red)	1.0017	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02427	0.421

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.93568	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.91557	1
Manapal/WT (break)	0.99978	1
Manapal/WT (red)	0.90011	0.607