Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.20.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22986	0.786
27DAP/17DAP	1.03505	1
39DAP/27DAP	1.10587	0.992
41DAP/39DAP	1.24213	0.569
42DAP/41DAP	0.81987	1
43DAP/42DAP	0.97395	0.925
47DAP/43DAP	0.9184	0.701
52DAP/47DAP	1.45268	0.478
57DAP/52DAP	0.87798	0.867

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13748	0.441
17DAP/reference	1.01837	0.427
27DAP/reference	1.00911	0.894
39DAP/reference	1.12663	0.027
41DAP/reference	1.13187	0.013
42DAP/reference	0.96874	0.413
43DAP/reference	0.94557	0.785
47DAP/reference	0.87063	0.224
52DAP/reference	1.09971	0.8
57DAP/reference	0.32667

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96672	0.663
27DAP/17DAP	0.87054	0.614
39DAP/27DAP	1.05125	0.623
41DAP/39DAP	1.03994	1
42DAP/41DAP	1.17767	0.526
43DAP/42DAP	1.0335	0.699
47DAP/43DAP	0.95084	0.823
52DAP/47DAP	0.99146	0.935
57DAP/52DAP	0.9276	0.511
57DAP/7DAP	1.22555	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9438	0.296
17DAP/reference	0.9107	0.167
27DAP/reference	0.95388	0.325
39DAP/reference	0.92213	0.264
41DAP/reference	1.00567	0.709
42DAP/reference	0.92744	0.095
43DAP/reference	0.95077	0.368
47DAP/reference	0.96518	0.504
52DAP/reference	0.88764	0.053
57DAP/reference	1.10469	0.966

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11516	0.404
17DAP/reference	1.19446	0.053
27DAP/reference	1.04955	0.704
39DAP/reference	1.16926	0.806
41DAP/reference	1.01846	1
42DAP/reference	1.01413	1
43DAP/reference	1.18483	0.59
47DAP/reference	1.00427	1
52DAP/reference	1.31002	0.012
57DAP/reference	1.32414	0.229

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89122	0.169
17DAP/reference	1.04412	0.538
27DAP/reference	0.88576	0.184
39DAP/reference	1.00322	0.889
41DAP/reference	0.88371	0.148
42DAP/reference	0.92026	0.361
43DAP/reference	1.09846	0.302
47DAP/reference	0.99283	0.626
52DAP/reference	1.00727	1
57DAP/reference	1.21863	0.648

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99528	1
26DAP/20DAP	0.82082	0.512
34DAP/26DAP	0.97707	0.961
51DAP/34DAP	0.86151	0.264
52DAP/51DAP	1.13768	0.413
53DAP/52DAP	1.12727	0.688
55DAP/53DAP	1.30701	0.256
57DAP/55DAP	0.93908	0.718
62DAP/57DAP	1.22358	0.217
68DAP/62DAP	0.88568	0.579
68DAP/14DAP	0.89188	0.086

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.84192	0.186

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.97239	0.66
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	0.78322	0.841
1-1-2/M82	0.85539	1
12-2/M82	1.04181	1
12-4/M82	0.97976	1
1-3/M82	0.79697	0.441
2-1-1/M82	1.05831
2-1/M82	N/A	N/A
2-6/M82	1.19792	0.695
3-2/M82	0.95002
4-1-1/M82	1.0315	1
4-1/M82	0.64236	1
4-3-2/M82	0.95509	0.698
4-3/M82	0.80403
5-3/M82	0.98992	1
6-2/M82	N/A	N/A
6-3/M82	1.14811	1
7-1/M82	1.10331	1
7-2/M82	0.95849	0.578
9-3-2/M82	0.84843	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.01111	0.493
IL2-6/WTpooled	1.18139	0.46
IL7-5/WTpooled	1.10137	0.67
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.96879	1
IL1-4/WTpooled	1.04413	1
WT/WTpooled	0.77555

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	0.91667	1
DC3000/delta hrp 6h	0.83742	0.81
DC3000/delta hrp 12h	1.01294	1
DC3000/delta hrp 24h	0.89856	0.575

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.98111	1
DC3000 delta B/DC3000 delta AB	0.91844	0.729

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.67957	1
Exp 36h	1.0814	1
Exp 60h	0.93914	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97845	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.10349	0.654
Var 12h NI row2-row1	0.75515	0.394
Var 36h I row2-row1	0.89399	0.805
Var 36h NI row2-row1	1.18344	1
Var 60h I row2-row1	1.71176	0.562
Var 60h NI row2-row1	1.12162	0.904
Time course 0hI-0hNI	1.06301	0.764
Time course 12hI-12hNI	1.06901	0.65
Time course 36hI-36hNI	0.91677	0.066
Time course 60hI-60hNI	1.0319	0.495

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)	3.0881	0.748
transgenic ySAMdc/azygous control (breaker)	1.16487	0.248
transgenic ySAMdc/azygous control (red)	0.96175	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00425	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.1312	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.56589	0.105
Manapal/WT (break)	1.4941	0.381
Manapal/WT (red)	1.00397	1