Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.9.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10812	0.681
27DAP/17DAP	0.81551	0.542
39DAP/27DAP	0.93973	0.652
41DAP/39DAP	1.12939	0.728
42DAP/41DAP	1.23916	0.978
43DAP/42DAP	1.03393	1
47DAP/43DAP	0.80905	0.424
52DAP/47DAP	1.46705	0.366
57DAP/52DAP	0.845	0.74

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14723	0.132
17DAP/reference	1.061	0.318
27DAP/reference	0.91629	0.089
39DAP/reference	1.00067	0.957
41DAP/reference	0.97135	0.542
42DAP/reference	0.91039	0.078
43DAP/reference	1.03624	0.705
47DAP/reference	0.82925	0.001
52DAP/reference	0.69298	0.014
57DAP/reference	0.74926	0.02

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06778	0.445
27DAP/17DAP	0.87801	0.121
39DAP/27DAP	0.94134	0.377
41DAP/39DAP	1.19859	0.347
42DAP/41DAP	1.04654	0.795
43DAP/42DAP	0.93184	0.097
47DAP/43DAP	0.99933	1
52DAP/47DAP	1.0165	0.945
57DAP/52DAP	0.96878	0.668
57DAP/7DAP	0.73729	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98408	0.613
17DAP/reference	0.879	0.012
27DAP/reference	0.7676	0.01
39DAP/reference	0.91688	0.043
41DAP/reference	0.88384	0.02
42DAP/reference	0.85643	0.028
43DAP/reference	0.9064	0.038
47DAP/reference	0.7531	0.057
52DAP/reference	0.84305	0.046
57DAP/reference	0.78432	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95838	0.607
17DAP/reference	0.99435	0.673
27DAP/reference	0.83678	0.155
39DAP/reference	0.99044	0.554
41DAP/reference	0.87699	0.124
42DAP/reference	0.86524	0.135
43DAP/reference	0.903	0.162
47DAP/reference	0.81185	0.036
52DAP/reference	0.74095	0.004
57DAP/reference	1.04214	0.581

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06605	0.265
17DAP/reference	0.94818	0.308
27DAP/reference	0.95635	0.27
39DAP/reference	0.84148	0.008
41DAP/reference	0.88032	0.132
42DAP/reference	0.80391	0.059
43DAP/reference	0.95991	0.484
47DAP/reference	0.7046	0.004
52DAP/reference	0.73943	0.081
57DAP/reference	0.6332	0.017

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04464	0.966
26DAP/20DAP	0.91274	0.512
34DAP/26DAP	0.98418	0.991
51DAP/34DAP	0.99096	0.893
52DAP/51DAP	1.00256	0.965
53DAP/52DAP	0.98716	0.97
55DAP/53DAP	0.94619	0.404
57DAP/55DAP	0.99132	0.839
62DAP/57DAP	1.09242	0.767
68DAP/62DAP	0.83914	0.406
68DAP/14DAP	0.76447	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96916	0.576

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.8113
Mature Green Tomato/Ripe Tomato	1.24174	0.166
Immature Eggplant/Mature Eggplant	1.18992	0.19
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.94781	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94534	0.944
1-1-2/M82	0.91011	1
12-2/M82	0.97798	0.955
12-4/M82	1.00381	1
1-3/M82	0.91952	0.501
2-1-1/M82	1.01907	1
2-1/M82	1.20343	1
2-6/M82	1.07414	0.594
3-2/M82	0.93298
4-1-1/M82	0.97647	1
4-1/M82	0.89992	1
4-3-2/M82	0.95156
4-3/M82	0.83178	0.611
5-3/M82	0.95895	0.447
6-2/M82	1.03889	1
6-3/M82	1.11321	1
7-1/M82	0.86638	0.803
7-2/M82	1.01928	1
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	0.58857
IL7-5/WTpooled	0.85009
IL7-3/WTpooled	1.70868
IL12-4/WTpooled	1.1257	0.785
IL1-4/WTpooled	0.8254
WT/WTpooled	1.04805	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	1.05396	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07794	0.914
DC3000/delta hrp 6h	1.52012	1
DC3000/delta hrp 12h	1.07631	1
DC3000/delta hrp 24h	1.67548	0.028

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.8929	0.046
DC3000 delta B/DC3000 delta AB	1.41692	0.083

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.90883	1
Exp 36h	1.1623	1
Exp 60h	1.36527	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.09677	1
Var 0h	1.34214	0.98
Var 12h I row2-row1	1.14581	0.272
Var 12h NI row2-row1	0.91955	0.82
Var 36h I row2-row1	0.90011	0.575
Var 36h NI row2-row1	0.9299	0.706
Var 60h I row2-row1	1.33742	1
Var 60h NI row2-row1	1.22293	0.904
Time course 0hI-0hNI	1.09826	0.719
Time course 12hI-12hNI	0.9876	0.94
Time course 36hI-36hNI	1.14226	0.08
Time course 60hI-60hNI	1.29974	0.009

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)	1.24516	0.287
transgenic ySAMdc/azygous control (breaker)	1.18808	1
transgenic ySAMdc/azygous control (red)	1.47612	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9403	0.099

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.12499	0.229

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.72074	0.172
Manapal/WT (break)	0.73594	0.333
Manapal/WT (red)	0.78958	0.216