Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.1.10.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14684	0.463
27DAP/17DAP	1.1631	0.833
39DAP/27DAP	0.87994	0.549
41DAP/39DAP	1.45782	0.321
42DAP/41DAP	1.05775	1
43DAP/42DAP	1.18042	0.892
47DAP/43DAP	1.18681	0.576
52DAP/47DAP	0.97445	0.774
57DAP/52DAP	1.13496	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22889	0.48
17DAP/reference	1.2146	0.412
27DAP/reference	0.84921	0.538
39DAP/reference	1.26788	0.191
41DAP/reference	2.21256	0.338
42DAP/reference	1.32489	0.311
43DAP/reference	1.13007	0.646
47DAP/reference	1.32954	0.167
52DAP/reference	1.27751	0.878
57DAP/reference	0.88888

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96059	0.542
27DAP/17DAP	1.00973	0.887
39DAP/27DAP	1.32112	0.478
41DAP/39DAP	1.15927	0.801
42DAP/41DAP	1.30587	1
43DAP/42DAP	1.35903	0.446
47DAP/43DAP	1.18629	0.641
52DAP/47DAP	1.2805	0.504
57DAP/52DAP	0.78252	0.221
57DAP/7DAP	0.5856

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76692	0.077
17DAP/reference	0.85555	0.012
27DAP/reference	0.83901	0.01
39DAP/reference	0.82395	0.011
41DAP/reference	0.8504	0.035
42DAP/reference	0.81097	0.01
43DAP/reference	0.77398	0.01
47DAP/reference	0.81931	0.101
52DAP/reference	0.73956	0.022
57DAP/reference	0.73485	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01731	0.848
17DAP/reference	1.0797	0.924
27DAP/reference	1.40952	0.235
39DAP/reference	N/A	N/A
41DAP/reference	0.86831	0.268
42DAP/reference	1.09985	0.369
43DAP/reference	0.90458	0.468
47DAP/reference	0.90549	0.368
52DAP/reference	1.63996	0.041
57DAP/reference	1.40523	0.314

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85536	0.044
17DAP/reference	0.96174	0.537
27DAP/reference	0.8399	0.038
39DAP/reference	0.70391	0.008
41DAP/reference	0.91469	0.264
42DAP/reference	0.79986	0.016
43DAP/reference	0.90778	0.071
47DAP/reference	1.30547	0.011
52DAP/reference	0.82117	0.242
57DAP/reference	1.74349	0.673

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	2.3138	0.966
26DAP/20DAP	1.05581	1
34DAP/26DAP	0.84054
51DAP/34DAP	0.85619	0.631
52DAP/51DAP	1.23685	0.783
53DAP/52DAP	0.95986	0.844
55DAP/53DAP	0.83754	0.761
57DAP/55DAP	1.20674	0.87
62DAP/57DAP	0.66796	0.05
68DAP/62DAP	0.61769	0.042
68DAP/14DAP	0.81312

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.09304	0.696

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.35501	0.166
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.93138	0.841
1-1-2/M82	0.95744	1
12-2/M82	1.12677	1
12-4/M82	1.06118	1
1-3/M82	0.96266	1
2-1-1/M82	1.11748	0.764
2-1/M82	1.37143
2-6/M82	1.01885	0.695
3-2/M82	1.10667
4-1-1/M82	0.89267	1
4-1/M82	0.80609
4-3-2/M82	0.91234	1
4-3/M82	0.86416	1
5-3/M82	1.01256	1
6-2/M82	0.94556	0.481
6-3/M82	1.015	1
7-1/M82	N/A	N/A
7-2/M82	0.9479	0.46
9-3-2/M82	0.93729

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.86761	0.243
IL2-6/WTpooled	0.99154	1
IL7-5/WTpooled	1.29116	1
IL7-3/WTpooled	0.92277	0.31
IL12-4/WTpooled	0.95641	0.554
IL1-4/WTpooled	0.95079	0.699
WT/WTpooled	1.0173	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10939	0.656
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.05328	1
DC3000/delta hrp 24h	1.06314	0.502

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	N/A	N/A
Exp 36h	N/A	N/A
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	N/A	N/A
Var 0h	0.89644	0.457
Var 12h I row2-row1	0.5477
Var 12h NI row2-row1	1.08267
Var 36h I row2-row1	0.87705
Var 36h NI row2-row1	0.93755
Var 60h I row2-row1	4.48049
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.16264	0.135

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.99474	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.82579	0.188