Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.17.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8763	0.419
27DAP/17DAP	1.1678	0.852
39DAP/27DAP	1.52996	0.208
41DAP/39DAP	0.98576	0.837
42DAP/41DAP	1.14996	0.882
43DAP/42DAP	0.92529	0.708
47DAP/43DAP	0.79368	0.382
52DAP/47DAP	1.2601	0.671
57DAP/52DAP	0.94353	0.923

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24789	0.188
17DAP/reference	1.29239	0.055
27DAP/reference	1.28014	0.118
39DAP/reference	1.13998	0.343
41DAP/reference	1.57524	0.013
42DAP/reference	1.39128	0.001
43DAP/reference	1.09643	0.596
47DAP/reference	1.10349	0.175
52DAP/reference	1.281	0.072
57DAP/reference	1.01829	0.736

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.7174	0.075
27DAP/17DAP	1.06357	0.909
39DAP/27DAP	1.07952	0.46
41DAP/39DAP	1.14107	0.427
42DAP/41DAP	0.96789	0.717
43DAP/42DAP	1.22207	0.015
47DAP/43DAP	1.07588	0.552
52DAP/47DAP	0.84946	0.274
57DAP/52DAP	1.09882	0.574
57DAP/7DAP	0.8022	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15708	0.119
17DAP/reference	1.02506	0.437
27DAP/reference	1.08935	0.009
39DAP/reference	1.01942	0.411
41DAP/reference	1.09608	0.389
42DAP/reference	1.2103	0.024
43DAP/reference	1.31624	0.007
47DAP/reference	1.23743	0.031
52DAP/reference	1.27351	0.043
57DAP/reference	1.06261	0.183

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.36547	0.049
17DAP/reference	1.24526	0.459
27DAP/reference	1.11473	0.781
39DAP/reference	1.28356	0.035
41DAP/reference	1.36404	0.035
42DAP/reference	1.34781	0.036
43DAP/reference	1.57963	0.038
47DAP/reference	1.26883	0.008
52DAP/reference	1.32058	0.034
57DAP/reference	1.34466	0.104

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13116	0.112
17DAP/reference	1.13095	0.362
27DAP/reference	1.05899	0.312
39DAP/reference	1.09279	0.33
41DAP/reference	1.05415	0.916
42DAP/reference	1.32966	0.033
43DAP/reference	1.45059	0.084
47DAP/reference	1.44503	0.016
52DAP/reference	0.85665	0.256
57DAP/reference	0.95189	0.424

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.33806	0.966
26DAP/20DAP	1.3822	0.147
34DAP/26DAP	0.9491	0.857
51DAP/34DAP	1.18291	0.177
52DAP/51DAP	1.02193	0.86
53DAP/52DAP	0.86351	0.301
55DAP/53DAP	0.93505	0.686
57DAP/55DAP	0.99706	0.911
62DAP/57DAP	1.28613	0.569
68DAP/62DAP	0.79419	0.609
68DAP/14DAP	0.95908

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.01947	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.79006	0.377
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	2.18618
Mature Eggplant/Ripe Tomato	1.45228	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.22399
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.98448
4-1-1/M82	N/A	N/A
4-1/M82	1.07268
4-3-2/M82	0.89718
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	0.92307

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.22916	0.277
IL2-6/WTpooled	0.74318	1
IL7-5/WTpooled	1.07265	1
IL7-3/WTpooled	0.95489	1
IL12-4/WTpooled	1.1706	0.695
IL1-4/WTpooled	0.88777	0.457
WT/WTpooled	1.00039	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	0.92973	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.13503	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.01667	1
DC3000/delta hrp 24h	1.02572	0.779

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.85367	0.388
DC3000 delta B/DC3000 delta AB	0.62767	0.021

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	0.985	1
Var 0h	0.90612	1
Var 12h I row2-row1	0.91206	0.705
Var 12h NI row2-row1	1.00742	1
Var 36h I row2-row1	1.09548	0.908
Var 36h NI row2-row1	0.91188	0.549
Var 60h I row2-row1	1.09962	0.562
Var 60h NI row2-row1	0.97143	0.572
Time course 0hI-0hNI	0.97976	0.93
Time course 12hI-12hNI	0.98362	0.86
Time course 36hI-36hNI	1.01136	0.975
Time course 60hI-60hNI	0.86243	0.015

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)	0.68765	1

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	1.1918	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.95976	1
Manapal/WT (break)	0.66809	1
Manapal/WT (red)	0.78089	0.242