Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.18.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12437	0.697
27DAP/17DAP	1.05879	0.926
39DAP/27DAP	0.90303	0.608
41DAP/39DAP	1.36646	0.387
42DAP/41DAP	0.91566	1
43DAP/42DAP	1.07009	1
47DAP/43DAP	1.5495	0.223
52DAP/47DAP	1.3543	0.619
57DAP/52DAP	1.03677	0.996

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90984	0.128
17DAP/reference	0.9448	0.298
27DAP/reference	0.88618	0.03
39DAP/reference	0.98817	0.828
41DAP/reference	0.94303	0.201
42DAP/reference	0.92199	0.043
43DAP/reference	0.97754	0.691
47DAP/reference	1.033	0.84
52DAP/reference	0.89072	0.073
57DAP/reference	1.00007	0.767

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02007	1
27DAP/17DAP	1.06216	0.98
39DAP/27DAP	1.09575	0.751
41DAP/39DAP	0.92305	0.793
42DAP/41DAP	0.98747	0.819
43DAP/42DAP	1.07894	0.746
47DAP/43DAP	1.02305	1
52DAP/47DAP	0.93616	0.71
57DAP/52DAP	1.06898	0.768
57DAP/7DAP	0.91324

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75278	0.069
17DAP/reference	0.89374	0.056
27DAP/reference	0.93264	0.283
39DAP/reference	0.91672	0.095
41DAP/reference	0.86757	0.035
42DAP/reference	0.95616	0.211
43DAP/reference	0.74221	0.011
47DAP/reference	0.96739	0.504
52DAP/reference	1.12584	1
57DAP/reference	0.94392	0.314

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92311	0.399
17DAP/reference	0.83224	0.032
27DAP/reference	0.90702	0.104
39DAP/reference	0.92239	0.257
41DAP/reference	1.10461	0.705
42DAP/reference	0.9248	0.15
43DAP/reference	1.0215	0.939
47DAP/reference	0.93492	0.173
52DAP/reference	0.91026	0.143
57DAP/reference	0.80665	0.068

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84635	0.039
17DAP/reference	0.95057	0.452
27DAP/reference	0.87661	0.062
39DAP/reference	0.8548	0.054
41DAP/reference	0.8614	0.037
42DAP/reference	0.94041	0.445
43DAP/reference	0.94062	0.294
47DAP/reference	0.99246	0.593
52DAP/reference	0.86511	0.284
57DAP/reference	0.95737	0.475

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12957	0.966
26DAP/20DAP	0.83743	0.317
34DAP/26DAP	0.99753	1
51DAP/34DAP	0.80851	0.428
52DAP/51DAP	0.90257	1
53DAP/52DAP	0.97074	0.854
55DAP/53DAP	0.99155	0.894
57DAP/55DAP	0.86971	0.415
62DAP/57DAP	1.04333	1
68DAP/62DAP	0.97441	0.834
68DAP/14DAP	1.10764	0.85

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.03877	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.56936	0.16
Mature Green Tomato/Ripe Tomato	0.32739	0.024
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.15663
Mature Eggplant/Ripe Tomato	0.40344	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.09166	0.877
1-1-2/M82	0.92954	1
12-2/M82	1.13911	1
12-4/M82	0.90346	1
1-3/M82	1.00381	1
2-1-1/M82	1.21241	0.764
2-1/M82	1.10824	0.345
2-6/M82	1.00417	1
3-2/M82	1.06021
4-1-1/M82	0.99608	1
4-1/M82	1.00217	1
4-3-2/M82	0.86728	0.698
4-3/M82	1.03105	1
5-3/M82	0.9648	1
6-2/M82	0.99623	1
6-3/M82	0.93648	1
7-1/M82	0.98815	1
7-2/M82	0.96545	0.881
9-3-2/M82	1.07579

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	N/A	N/A
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	0.97832	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02749	0.921
DC3000/delta hrp 6h	1.28249	1
DC3000/delta hrp 12h	1.14008	1
DC3000/delta hrp 24h	0.99827	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	1.84287

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.88532	1
Exp 36h	0.97104	1
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	1.01531	1
Var 0h	1.13942	0.374
Var 12h I row2-row1	1.11513	0.263
Var 12h NI row2-row1	0.73093	0.713
Var 36h I row2-row1	1.00992	1
Var 36h NI row2-row1	0.72876	0.791
Var 60h I row2-row1	1.06736	0.562
Var 60h NI row2-row1	0.81148	0.483
Time course 0hI-0hNI	0.92718	0.319
Time course 12hI-12hNI	1.06705	0.647
Time course 36hI-36hNI	1.07185	0.316
Time course 60hI-60hNI	1.17734	0.08

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)	1.15111	0.278
transgenic ySAMdc/azygous control (breaker)	1.10177	1
transgenic ySAMdc/azygous control (red)	1.01459	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00678	0.723

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.81537	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.36703	0.105
Manapal/WT (break)	1.35164	0.381
Manapal/WT (red)	0.92576	0.424