Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.17.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20791	0.827
27DAP/17DAP	1.23267	0.845
39DAP/27DAP	0.79545	0.447
41DAP/39DAP	1.4612	0.303
42DAP/41DAP	1.19661	0.912
43DAP/42DAP	1.21588	0.954
47DAP/43DAP	1.07273	0.926
52DAP/47DAP	0.89955	0.694
57DAP/52DAP	0.98127	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01181	0.96
17DAP/reference	0.99481	0.904
27DAP/reference	0.99243	0.763
39DAP/reference	0.96145	0.5
41DAP/reference	0.95488	0.154
42DAP/reference	1.0009	0.731
43DAP/reference	0.99629	0.882
47DAP/reference	0.99546	0.636
52DAP/reference	1.01441	1
57DAP/reference	1.04185	0.379

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96347	0.663
27DAP/17DAP	0.97409	0.887
39DAP/27DAP	0.99719	1
41DAP/39DAP	1.0451	0.887
42DAP/41DAP	0.99345	0.884
43DAP/42DAP	1.01434	0.83
47DAP/43DAP	1.01464	0.95
52DAP/47DAP	0.97555	0.902
57DAP/52DAP	0.99052	0.776
57DAP/7DAP	0.92446	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95866	0.361
17DAP/reference	0.91946	0.028
27DAP/reference	0.92277	0.171
39DAP/reference	0.93418	0.064
41DAP/reference	0.91952	0.044
42DAP/reference	0.91666	0.03
43DAP/reference	0.94502	0.166
47DAP/reference	0.85931	0.128
52DAP/reference	0.98675	0.571
57DAP/reference	0.9435	0.183

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05776	0.65
17DAP/reference	1.02981	0.708
27DAP/reference	0.85963	0.048
39DAP/reference	0.96911	0.404
41DAP/reference	0.88498	0.035
42DAP/reference	0.93278	0.135
43DAP/reference	0.99657	0.801
47DAP/reference	0.95297	0.261
52DAP/reference	1.03556	0.135
57DAP/reference	0.95256	0.18

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94752	0.335
17DAP/reference	0.97871	0.444
27DAP/reference	0.94234	0.06
39DAP/reference	0.91087	0.029
41DAP/reference	0.93311	0.132
42DAP/reference	0.84334	0.059
43DAP/reference	0.88219	0.143
47DAP/reference	0.94461	0.199
52DAP/reference	0.83573	0.144
57DAP/reference	0.74875	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06292	0.966
26DAP/20DAP	0.8741	0.317
34DAP/26DAP	1.03411	0.819
51DAP/34DAP	1.13448	0.387
52DAP/51DAP	1.02202	0.873
53DAP/52DAP	0.97412	0.862
55DAP/53DAP	0.96819	0.761
57DAP/55DAP	1.10466	0.854
62DAP/57DAP	1.05583	0.902
68DAP/62DAP	0.89238	0.505
68DAP/14DAP	1.02439	0.936

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.92258	0.166

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.89095	0.384
Mature Green Tomato/Ripe Tomato	1.16728	0.69
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.97916	1
Mature Eggplant/Ripe Tomato	0.52412	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96335	0.944
1-1-2/M82	1.00961	1
12-2/M82	1.0709	1
12-4/M82	1.03605	1
1-3/M82	0.90963	1
2-1-1/M82	1.12203	0.276
2-1/M82	N/A	N/A
2-6/M82	0.97433	1
3-2/M82	1.0312	1
4-1-1/M82	0.97014	1
4-1/M82	0.85452	1
4-3-2/M82	0.91316	1
4-3/M82	0.55147
5-3/M82	0.93011	0.642
6-2/M82	0.98614
6-3/M82	1.08698
7-1/M82	0.99057
7-2/M82	0.90985	0.57
9-3-2/M82	0.98923	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.46385
IL7-5/WTpooled	1.04095
IL7-3/WTpooled	1.01973
IL12-4/WTpooled	1.38874	0.785
IL1-4/WTpooled	0.93833	0.834
WT/WTpooled	1.08128	0.85

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	1.1098	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9661	1
DC3000/delta hrp 6h	0.91089	0.95
DC3000/delta hrp 12h	1.06603	1
DC3000/delta hrp 24h	1.01825	0.743

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.00054	1
DC3000 delta B/DC3000 delta AB	0.99191	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02075	1
Exp 36h	0.99084	1
Exp 60h	1.07656	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95617	1
Var 0h	0.98777	1
Var 12h I row2-row1	1.24091	0.506
Var 12h NI row2-row1	0.9767	0.906
Var 36h I row2-row1	0.97802	1
Var 36h NI row2-row1	1.18606	1
Var 60h I row2-row1	1.27916	0.562
Var 60h NI row2-row1	1.09468	0.904
Time course 0hI-0hNI	1.03533	0.867
Time course 12hI-12hNI	0.9775	0.874
Time course 36hI-36hNI	1.07631	0.401
Time course 60hI-60hNI	1.13557	0.115

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)	1.30213	0.297
transgenic ySAMdc/azygous control (breaker)	1.1626	0.248
transgenic ySAMdc/azygous control (red)	1.0733	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.54615	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.17032	1
Manapal/WT (break)	1.17908	0.381
Manapal/WT (red)	1.14775	1