Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.18.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86492	0.456
27DAP/17DAP	1.18286	0.841
39DAP/27DAP	0.9132	0.631
41DAP/39DAP	0.72989	0.157
42DAP/41DAP	0.98625	1
43DAP/42DAP	1.08689	1
47DAP/43DAP	0.92039	0.66
52DAP/47DAP	1.11076	0.906
57DAP/52DAP	1.00929	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82216	0.05
17DAP/reference	0.97504	0.664
27DAP/reference	0.94791	0.444
39DAP/reference	0.93727	0.174
41DAP/reference	0.90658	0.201
42DAP/reference	0.8761	0.004
43DAP/reference	0.99955	0.904
47DAP/reference	0.85506	0.014
52DAP/reference	0.89093	0.03
57DAP/reference	0.93612	0.199

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98285	0.644
27DAP/17DAP	1.02043	1
39DAP/27DAP	0.89012	0.601
41DAP/39DAP	1.14964	1
42DAP/41DAP	0.79707	0.156
43DAP/42DAP	0.96074	0.729
47DAP/43DAP	0.97826	0.919
52DAP/47DAP	1.15749	0.609
57DAP/52DAP	1.2319	0.368
57DAP/7DAP	1.05186

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97349	0.55
17DAP/reference	1.07082	0.123
27DAP/reference	1.01265	1
39DAP/reference	0.94853	0.474
41DAP/reference	0.98177	0.565
42DAP/reference	0.86727	0.178
43DAP/reference	1.01698	1
47DAP/reference	1.11699	0.182
52DAP/reference	0.83176	0.09
57DAP/reference	0.90563	0.314

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74392	0.019
17DAP/reference	0.70464	0.008
27DAP/reference	0.86141	0.108
39DAP/reference	0.93304	0.189
41DAP/reference	0.85552	0.133
42DAP/reference	0.86974	0.039
43DAP/reference	0.89928	0.285
47DAP/reference	0.76885	0.099
52DAP/reference	0.89417	0.04
57DAP/reference	0.89544	0.144

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91769	0.311
17DAP/reference	0.90329	0.426
27DAP/reference	1.04891	0.721
39DAP/reference	1.00107	0.889
41DAP/reference	1.04505	0.84
42DAP/reference	0.97651	0.671
43DAP/reference	0.88596	0.171
47DAP/reference	0.83272	0.008
52DAP/reference	1.17463	0.436
57DAP/reference	0.96437	0.483

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.15684	0.817
26DAP/20DAP	1.1975	0.567
34DAP/26DAP	0.9588	0.98
51DAP/34DAP	1.40315	0.2
52DAP/51DAP	1.08185	0.704
53DAP/52DAP	1.09412	0.797
55DAP/53DAP	0.96551	0.784
57DAP/55DAP	1.1187	0.915
62DAP/57DAP	0.87662	0.681
68DAP/62DAP	1.20537	0.455
68DAP/14DAP	1.5198	0.08

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.65506	0.057

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.63649
Mature Green Tomato/Ripe Tomato	0.84686	0.446
Immature Eggplant/Mature Eggplant	1.14264	0.363
Ripe Pepper/Ripe Tomato	1.3698	1
Mature Eggplant/Ripe Tomato	2.54954	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.23094
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.9291	0.619
1-3/M82	N/A	N/A
2-1-1/M82	0.75859
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.09931
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	1.16001	0.378
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.09705
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	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	1.1512
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	1.05997	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.23251	0.921
DC3000/delta hrp 6h	0.79199	0.942
DC3000/delta hrp 12h	1.01061	1
DC3000/delta hrp 24h	1.11654	0.743

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98237	1
Exp 36h	1.15658	1
Exp 60h	1.24592	0.215

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01429	1
Var 0h	0.66534	0.933
Var 12h I row2-row1	1.18757	0.348
Var 12h NI row2-row1	0.93056	0.906
Var 36h I row2-row1	0.84116	0.908
Var 36h NI row2-row1	1.35557	1
Var 60h I row2-row1	0.85755	0.374
Var 60h NI row2-row1	1.16332	1
Time course 0hI-0hNI	0.97908	0.908
Time course 12hI-12hNI	1.09766	0.49
Time course 36hI-36hNI	0.94746	0.373
Time course 60hI-60hNI	1.88844	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)	1.07183	0.331
transgenic ySAMdc/azygous control (breaker)	1.11884	1
transgenic ySAMdc/azygous control (red)	1.0602	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03032	0.223

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.00239	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.78357	0.172
Manapal/WT (break)	1.00029	1
Manapal/WT (red)	0.84184	0.184