Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.13.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91005	0.558
27DAP/17DAP	1.12815	0.885
39DAP/27DAP	0.78096	0.443
41DAP/39DAP	1.35214	0.403
42DAP/41DAP	1.11906	0.933
43DAP/42DAP	1.04052	0.945
47DAP/43DAP	1.17449	0.943
52DAP/47DAP	1.21915	0.75
57DAP/52DAP	0.9613	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96247	0.442
17DAP/reference	0.99681	0.957
27DAP/reference	1.01599	0.934
39DAP/reference	0.96623	0.638
41DAP/reference	1.00064	1
42DAP/reference	0.90675	0.024
43DAP/reference	1.07653	0.047
47DAP/reference	0.89072	0.027
52DAP/reference	0.84514	0.096
57DAP/reference	0.81116	0.038

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91984	0.336
27DAP/17DAP	0.94602	0.648
39DAP/27DAP	1.08861	0.499
41DAP/39DAP	1.14762	0.773
42DAP/41DAP	0.96416	0.708
43DAP/42DAP	1.02878	0.513
47DAP/43DAP	1.06405	0.464
52DAP/47DAP	1.02743	0.907
57DAP/52DAP	1.0799	0.552
57DAP/7DAP	1.17209	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05116	0.776
17DAP/reference	0.94701	0.22
27DAP/reference	0.90962	0.348
39DAP/reference	0.97723	0.354
41DAP/reference	0.84399	0.026
42DAP/reference	0.96262	0.338
43DAP/reference	1.02116	1
47DAP/reference	0.86578	0.168
52DAP/reference	0.8609	0.038
57DAP/reference	0.86076	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01938	0.695
17DAP/reference	0.96421	0.389
27DAP/reference	0.9584	0.381
39DAP/reference	0.87437	0.178
41DAP/reference	0.93591	0.231
42DAP/reference	0.8758	0.098
43DAP/reference	1.09428	0.297
47DAP/reference	0.91586	0.164
52DAP/reference	0.96936	0.327
57DAP/reference	1.10867	0.221

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00957	1
17DAP/reference	0.99476	0.825
27DAP/reference	0.91814	0.043
39DAP/reference	0.98976	0.643
41DAP/reference	0.87188	0.033
42DAP/reference	0.79658	0.071
43DAP/reference	0.71902	0.143
47DAP/reference	1.03474	0.73
52DAP/reference	0.99037	0.854
57DAP/reference	0.67388	0.022

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99401	1
26DAP/20DAP	1.07922	0.707
34DAP/26DAP	1.03611	1
51DAP/34DAP	0.92598	0.442
52DAP/51DAP	1.09624	0.396
53DAP/52DAP	0.9789	0.882
55DAP/53DAP	0.97052	0.796
57DAP/55DAP	1.04523	0.87
62DAP/57DAP	1.13412	0.569
68DAP/62DAP	1.08472	0.872
68DAP/14DAP	0.96676	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96191	0.52

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.87539	0.086
Immature Eggplant/Mature Eggplant	1.90021
Ripe Pepper/Ripe Tomato	0.1692	0.224
Mature Eggplant/Ripe Tomato	0.32411	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96292	0.944
1-1-2/M82	0.97034	1
12-2/M82	1.20109	1
12-4/M82	0.87887	1
1-3/M82	0.90988	0.501
2-1-1/M82	1.08338	1
2-1/M82	1.18884	1
2-6/M82	0.97366	1
3-2/M82	1.06359
4-1-1/M82	1.09665	1
4-1/M82	0.99254	1
4-3-2/M82	0.82185	0.698
4-3/M82	0.98913	1
5-3/M82	0.91149	1
6-2/M82	1.04678	1
6-3/M82	0.9432	1
7-1/M82	0.89169
7-2/M82	1.08491	1
9-3-2/M82	0.95496	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.03002	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.10276	1
IL12-4/WTpooled	1.37444	0.553
IL1-4/WTpooled	1.05462
WT/WTpooled	1.00103	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	1.91811	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9966	1
DC3000/delta hrp 6h	3.28538
DC3000/delta hrp 12h	1.09209	1
DC3000/delta hrp 24h	1.0265	0.69

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.86206	0.041
DC3000 delta B/DC3000 delta AB	1.04377	0.55

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.17205	1
Exp 36h	N/A	N/A
Exp 60h	3.95479	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01056	1
Var 0h	0.97057	1
Var 12h I row2-row1	1.15426	0.235
Var 12h NI row2-row1	0.82136	0.713
Var 36h I row2-row1	0.83911	1
Var 36h NI row2-row1	0.91872	0.645
Var 60h I row2-row1	1.09089	1
Var 60h NI row2-row1	1.19929	0.904
Time course 0hI-0hNI	1.1018	0.799
Time course 12hI-12hNI	1.10575	0.503
Time course 36hI-36hNI	1.67241	0.005
Time course 60hI-60hNI	1.85533	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)	1.83299	0.286
transgenic ySAMdc/azygous control (breaker)	0.27986	0.131
transgenic ySAMdc/azygous control (red)	1.40904	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99576	0.673

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.20775	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.73312	1
Manapal/WT (break)	0.51081	0.333
Manapal/WT (red)	0.2275	0.181