Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.8.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18345	0.615
27DAP/17DAP	1.17197	0.845
39DAP/27DAP	0.92613	0.631
41DAP/39DAP	1.28453	0.437
42DAP/41DAP	1.14787	0.938
43DAP/42DAP	0.95254	0.892
47DAP/43DAP	0.95279	0.821
52DAP/47DAP	1.38669	0.601
57DAP/52DAP	0.89343	0.869

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90077	0.109
17DAP/reference	1.02323	0.546
27DAP/reference	0.94933	0.349
39DAP/reference	1.05931	0.294
41DAP/reference	1.08249	0.312
42DAP/reference	0.8662	0.009
43DAP/reference	1.08112	0.269
47DAP/reference	0.89096	0.012
52DAP/reference	0.83383	0.044
57DAP/reference	0.80296	0.028

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92676	0.578
27DAP/17DAP	0.99964	0.969
39DAP/27DAP	1.14672	0.331
41DAP/39DAP	0.9702	0.945
42DAP/41DAP	1.01905	1
43DAP/42DAP	1.02748	0.788
47DAP/43DAP	1.02127	0.934
52DAP/47DAP	1.06084	0.819
57DAP/52DAP	1.2132	0.167
57DAP/7DAP	1.27948	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78288	0.074
17DAP/reference	0.77459	0.028
27DAP/reference	0.79889	0.033
39DAP/reference	0.74522	0.011
41DAP/reference	0.78637	0.016
42DAP/reference	0.86223	0.13
43DAP/reference	0.72926	0.018
47DAP/reference	0.79123	0.038
52DAP/reference	0.80587	0.033
57DAP/reference	0.76751	0.013

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93986	0.475
17DAP/reference	0.93871	0.201
27DAP/reference	0.80676	0.081
39DAP/reference	0.84186	0.136
41DAP/reference	0.89181	0.105
42DAP/reference	0.84755	0.098
43DAP/reference	1.13525	0.462
47DAP/reference	0.97592	0.459
52DAP/reference	0.94663	0.239
57DAP/reference	1.08564	0.737

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80192	0.054
17DAP/reference	0.95651	0.56
27DAP/reference	0.75796	0.06
39DAP/reference	0.83941	0.063
41DAP/reference	0.82647	0.07
42DAP/reference	0.78507	0.108
43DAP/reference	0.87609	0.281
47DAP/reference	1.05196	1
52DAP/reference	0.99018	0.747
57DAP/reference	0.67208	0.039

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9476	1
26DAP/20DAP	0.8234	0.113
34DAP/26DAP	1.00153	1
51DAP/34DAP	1.02171	0.936
52DAP/51DAP	1.05217	0.77
53DAP/52DAP	1.03568	0.944
55DAP/53DAP	1.09982	0.366
57DAP/55DAP	0.97382	0.859
62DAP/57DAP	0.98575	0.994
68DAP/62DAP	0.84465	0.345
68DAP/14DAP	0.89994	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.0656	0.821

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.64101	0.017
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.19409	0.224
Mature Eggplant/Ripe Tomato	0.38556	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96928	0.944
1-1-2/M82	0.85363	0.958
12-2/M82	1.2079	1
12-4/M82	0.89343	1
1-3/M82	0.80308	0.378
2-1-1/M82	1.11485	1
2-1/M82	0.88403
2-6/M82	1.21814	0.594
3-2/M82	0.9638	1
4-1-1/M82	1.17562	1
4-1/M82	1.18144	0.853
4-3-2/M82	0.90545	0.698
4-3/M82	1.17774	1
5-3/M82	0.892	0.49
6-2/M82	0.9711	1
6-3/M82	0.93781	1
7-1/M82	1.05223	1
7-2/M82	0.98299	1
9-3-2/M82	1.00386	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.89786
IL2-6/WTpooled	1.235	0.419
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.40886	0.362
IL12-4/WTpooled	0.72735	0.543
IL1-4/WTpooled	1.25479	1
WT/WTpooled	0.87695	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	0.80627	0.256

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00493	1
DC3000/delta hrp 6h	0.94701	0.95
DC3000/delta hrp 12h	1.16002	1
DC3000/delta hrp 24h	1.00627	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.89651
DC3000 delta B/DC3000 delta AB	1.05805	0.472

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.86724	1
Exp 36h	1.02866	1
Exp 60h	0.83921	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02296	1
Var 0h	0.9219	0.594
Var 12h I row2-row1	1.05724	0.379
Var 12h NI row2-row1	0.82641	0.546
Var 36h I row2-row1	0.79591	1
Var 36h NI row2-row1	0.99468	1
Var 60h I row2-row1	1.45739	0.562
Var 60h NI row2-row1	1.32907	0.904
Time course 0hI-0hNI	1.12748	0.574
Time course 12hI-12hNI	1.00731	1
Time course 36hI-36hNI	0.96369	0.403
Time course 60hI-60hNI	1.1727	0.037

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)	1.03902	0.699
transgenic ySAMdc/azygous control (breaker)	0.87891	0.49
transgenic ySAMdc/azygous control (red)	0.68443	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00996	0.656

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.24132	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.64372	1
Manapal/WT (break)	0.98037	1
Manapal/WT (red)	1.72664	0.126