Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.11.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96669	0.722
27DAP/17DAP	0.9624	0.964
39DAP/27DAP	1.05303	0.919
41DAP/39DAP	1.0454	0.642
42DAP/41DAP	0.91394	1
43DAP/42DAP	1.02909	1
47DAP/43DAP	1.02133	0.873
52DAP/47DAP	1.10055	0.787
57DAP/52DAP	1.08996	0.82

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95631	0.2
17DAP/reference	0.96657	0.368
27DAP/reference	0.98837	0.683
39DAP/reference	0.99942	1
41DAP/reference	0.92415	0.201
42DAP/reference	1.00573	1
43DAP/reference	1.02066	0.569
47DAP/reference	1.35418	0.003
52DAP/reference	1.53764	0.009
57DAP/reference	1.41089	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0042	1
27DAP/17DAP	1.03713	0.909
39DAP/27DAP	0.90274	0.167
41DAP/39DAP	0.95762	0.567
42DAP/41DAP	1.03682	0.46
43DAP/42DAP	1.027	0.446
47DAP/43DAP	1.00373	0.973
52DAP/47DAP	1.02521	0.939
57DAP/52DAP	0.97717	0.732
57DAP/7DAP	1.0046	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82401	0.074
17DAP/reference	0.88346	0.012
27DAP/reference	0.92359	0.017
39DAP/reference	0.89308	0.025
41DAP/reference	0.9759	0.357
42DAP/reference	0.9743	0.248
43DAP/reference	0.90718	0.076
47DAP/reference	0.81671	0.038
52DAP/reference	0.91896	0.196
57DAP/reference	0.98463	0.61

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93249	0.268
17DAP/reference	0.98835	0.642
27DAP/reference	0.96363	0.249
39DAP/reference	0.92049	0.113
41DAP/reference	0.91489	0.13
42DAP/reference	0.9899	0.594
43DAP/reference	0.88389	0.157
47DAP/reference	1.01492	0.841
52DAP/reference	0.9346	0.04
57DAP/reference	0.96099	0.243

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89196	0.065
17DAP/reference	0.90953	0.103
27DAP/reference	0.90927	0.03
39DAP/reference	0.91634	0.016
41DAP/reference	0.87394	0.037
42DAP/reference	0.88851	0.071
43DAP/reference	0.94772	0.294
47DAP/reference	1.13091	0.034
52DAP/reference	1.04559	0.694
57DAP/reference	2.45424	0.008

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01247	0.966
26DAP/20DAP	1.00591	1
34DAP/26DAP	0.97439	0.998
51DAP/34DAP	0.99215	0.927
52DAP/51DAP	1.0017	1
53DAP/52DAP	1.12944
55DAP/53DAP	0.81805	0.016
57DAP/55DAP	0.9984	0.93
62DAP/57DAP	0.99999	1
68DAP/62DAP	0.98768	0.885
68DAP/14DAP	1.14315	0.041

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.00957	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.65659	0.167
Mature Green Tomato/Ripe Tomato	0.64439	0.119
Immature Eggplant/Mature Eggplant	0.94398	0.651
Ripe Pepper/Ripe Tomato	0.39185	0.224
Mature Eggplant/Ripe Tomato	0.13679	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.92485	0.944
1-1-2/M82	1.00854	1
12-2/M82	0.9057	0.955
12-4/M82	0.96432	1
1-3/M82	1.03237	0.479
2-1-1/M82	0.79517	0.465
2-1/M82	1.12285	1
2-6/M82	0.95818	1
3-2/M82	0.98739	1
4-1-1/M82	0.95415	1
4-1/M82	0.65501	1
4-3-2/M82	0.91193	0.698
4-3/M82	0.95794	1
5-3/M82	0.99021	1
6-2/M82	0.94452	1
6-3/M82	1.02884	1
7-1/M82	0.98824	1
7-2/M82	0.90648	0.881
9-3-2/M82	1.09884	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.78885	0.243
IL2-6/WTpooled	0.76292	0.383
IL7-5/WTpooled	0.70133	1
IL7-3/WTpooled	0.95723	1
IL12-4/WTpooled	0.9414	0.581
IL1-4/WTpooled	0.69954	0.457
WT/WTpooled	1.00798	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	1.3117	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04965	0.921
DC3000/delta hrp 6h	1.32025	1
DC3000/delta hrp 12h	0.92744	1
DC3000/delta hrp 24h	0.99727	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.97682	0.92
DC3000 delta B/DC3000 delta AB	1.09137	0.368

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	0.95881	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.13774	0.195
Var 12h NI row2-row1	0.90129	0.627
Var 36h I row2-row1	1.16604	1
Var 36h NI row2-row1	1.22334	1
Var 60h I row2-row1	1.32782	1
Var 60h NI row2-row1	1.14502	0.904
Time course 0hI-0hNI	1.03062	1
Time course 12hI-12hNI	1.01894	0.849
Time course 36hI-36hNI	1.0147	0.799
Time course 60hI-60hNI	1.11911	0.053

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)	0.92976	0.529
transgenic ySAMdc/azygous control (breaker)	0.86243	0.251
transgenic ySAMdc/azygous control (red)	0.68085	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01585	0.421

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.16101	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.66881	1
Manapal/WT (break)	3.70862	0.14
Manapal/WT (red)	1.13283	1