Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.11.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99771	0.901
27DAP/17DAP	1.0947	0.859
39DAP/27DAP	0.99338	0.782
41DAP/39DAP	1.10681	0.964
42DAP/41DAP	1.11478	0.926
43DAP/42DAP	1.08231	1
47DAP/43DAP	1.17251	0.659
52DAP/47DAP	0.89225	0.683
57DAP/52DAP	1.00762	0.988

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83995	0.308
17DAP/reference	0.60245	0.007
27DAP/reference	0.82167	0.24
39DAP/reference	1.00882	1
41DAP/reference	0.85043	0.201
42DAP/reference	1.08742	0.276
43DAP/reference	0.84602	0.2
47DAP/reference	1.08706	0.627
52DAP/reference	1.17685	0.453
57DAP/reference	0.9374	0.415

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.05272	0.63
27DAP/17DAP	1.10044	0.694
39DAP/27DAP	1.02894	0.718
41DAP/39DAP	1.0895	0.827
42DAP/41DAP	0.97117	0.757
43DAP/42DAP	1.00748	1
47DAP/43DAP	1.17041	0.344
52DAP/47DAP	1.02872	0.892
57DAP/52DAP	0.91038	0.331
57DAP/7DAP	1.05687	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15914	0.173
17DAP/reference	0.90172	0.108
27DAP/reference	0.65897	0.01
39DAP/reference	0.53209	0.011
41DAP/reference	0.53486	0.025
42DAP/reference	0.46178	0.01
43DAP/reference	0.41378	0.011
47DAP/reference	0.62098	0.128
52DAP/reference	0.41501	0.012
57DAP/reference	0.46691	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88194	0.248
17DAP/reference	0.96556	0.561
27DAP/reference	0.88265	0.34
39DAP/reference	0.94488	0.381
41DAP/reference	1.13444	1
42DAP/reference	1.02879	1
43DAP/reference	0.57895	0.025
47DAP/reference	0.88675	0.201
52DAP/reference	0.77207	0.012
57DAP/reference	0.75843	0.032

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.50185	0.015
17DAP/reference	2.0075	0.162
27DAP/reference	1.69785	0.022
39DAP/reference	1.43264	0.015
41DAP/reference	0.87145	0.132
42DAP/reference	0.68312	0.049
43DAP/reference	0.60986	0.016
47DAP/reference	0.75526	0.045
52DAP/reference	0.59141	0.047
57DAP/reference	1.15736	0.827

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	N/A	N/A
26DAP/20DAP	0.878	0.244
34DAP/26DAP	0.98994	1
51DAP/34DAP	0.91301	0.598
52DAP/51DAP	0.95466	1
53DAP/52DAP	0.95452	0.79
55DAP/53DAP	0.99292	0.852
57DAP/55DAP	0.94051	0.754
62DAP/57DAP	0.95325	0.994
68DAP/62DAP	3.87769	0.672
68DAP/14DAP	0.54567	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.60622	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.01259	1
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	2.98323	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98576	0.961
1-1-2/M82	0.90025	1
12-2/M82	1.17451	1
12-4/M82	1.01089	1
1-3/M82	0.78481
2-1-1/M82	1.10613	0.764
2-1/M82	N/A	N/A
2-6/M82	0.9223	1
3-2/M82	N/A	N/A
4-1-1/M82	0.9079	1
4-1/M82	1.08748	0.853
4-3-2/M82	0.96322
4-3/M82	1.0816	1
5-3/M82	1.01269	1
6-2/M82	1.05246	1
6-3/M82	0.99224	1
7-1/M82	0.9393
7-2/M82	1.03695	1
9-3-2/M82	0.96266	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.21245	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.04361	1
IL12-4/WTpooled	1.39721	0.624
IL1-4/WTpooled	29.5239	1
WT/WTpooled	0.92109	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	0.96086	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02607	0.921
DC3000/delta hrp 6h	0.90733	0.95
DC3000/delta hrp 12h	0.99326	1
DC3000/delta hrp 24h	0.88097	0.395

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.59998	0.026
DC3000 delta B/DC3000 delta AB	0.54399	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.16264	1
Exp 36h	0.64954	0.504
Exp 60h	0.48346	0.257

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01145	1
Var 0h	2.22035	0.936
Var 12h I row2-row1	0.80207	0.338
Var 12h NI row2-row1	0.97702	0.713
Var 36h I row2-row1	0.89554	1
Var 36h NI row2-row1	0.95533	0.791
Var 60h I row2-row1	1.03824	0.562
Var 60h NI row2-row1	0.98745	1
Time course 0hI-0hNI	0.97801	0.927
Time course 12hI-12hNI	0.98195	0.886
Time course 36hI-36hNI	0.90863	0.127
Time course 60hI-60hNI	0.3624	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)	1.21074	0.863
transgenic ySAMdc/azygous control (breaker)	0.92579	0.49
transgenic ySAMdc/azygous control (red)	1.075	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04932	0.967

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.03957	0.228

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.31949	0.105
Manapal/WT (break)	1.26328	0.381
Manapal/WT (red)	0.95923	0.728