Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.16.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10358	0.798
27DAP/17DAP	1.33453	0.742
39DAP/27DAP	1.13476	0.75
41DAP/39DAP	0.85301	0.445
42DAP/41DAP	0.98897	1
43DAP/42DAP	1.0773	1
47DAP/43DAP	0.81562	0.429
52DAP/47DAP	0.93958	0.806
57DAP/52DAP	1.38711	0.652

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15355	0.441
17DAP/reference	1.09886	0.858
27DAP/reference	1.0597	0.904
39DAP/reference	0.72037
41DAP/reference	1.41212	0.667
42DAP/reference	0.89688	0.111
43DAP/reference	1.36931	0.053
47DAP/reference	1.2063	0.728
52DAP/reference	N/A	N/A
57DAP/reference	1.54574	0.147

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03517	0.881
27DAP/17DAP	0.96176	0.878
39DAP/27DAP	1.12898	0.465
41DAP/39DAP	0.95212	0.893
42DAP/41DAP	0.99396	0.845
43DAP/42DAP	0.99294	0.928
47DAP/43DAP	0.91298	0.428
52DAP/47DAP	0.95637	0.839
57DAP/52DAP	1.08075	0.594
57DAP/7DAP	1.28041	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15518	0.399
17DAP/reference	1.49455	0.012
27DAP/reference	1.46376	0.008
39DAP/reference	2.00538	0.006
41DAP/reference	1.92495	0.02
42DAP/reference	1.62123	0.01
43DAP/reference	1.78917	0.009
47DAP/reference	1.11164	0.7
52DAP/reference	1.56016	0.009
57DAP/reference	1.49804	0.026

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15874	0.926
17DAP/reference	1.02811	0.924
27DAP/reference	1.02572	0.711
39DAP/reference	0.79485	0.189
41DAP/reference	1.08017	1
42DAP/reference	0.98712	0.594
43DAP/reference	1.03193	0.748
47DAP/reference	0.92629	0.41
52DAP/reference	0.98698	0.619
57DAP/reference	1.00181	0.649

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.35474	0.185
17DAP/reference	1.05411	0.876
27DAP/reference	1.21368	0.04
39DAP/reference	1.16976	0.112
41DAP/reference	1.20225	0.188
42DAP/reference	1.36173	0.035
43DAP/reference	1.40232	0.186
47DAP/reference	1.12074	0.847
52DAP/reference	1.87585	0.043
57DAP/reference	1.14612	0.636

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	2.19102
26DAP/20DAP	1.16037	0.453
34DAP/26DAP	1.27109	1
51DAP/34DAP	1.20156	0.261
52DAP/51DAP	1.18808	0.387
53DAP/52DAP	0.97685	0.891
55DAP/53DAP	0.75133	0.303
57DAP/55DAP	1.52952	0.075
62DAP/57DAP	1.08446	1
68DAP/62DAP	0.73278	0.464
68DAP/14DAP	0.41895	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.41377	0.015

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.19091	0.898
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.31395	0.293
Mature Eggplant/Ripe Tomato	0.91901	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.90441	0.944
1-1-2/M82	1.03644	1
12-2/M82	0.58039
12-4/M82	0.95653	0.272
1-3/M82	N/A	N/A
2-1-1/M82	1.18354
2-1/M82	N/A	N/A
2-6/M82	0.83829	1
3-2/M82	1.37663
4-1-1/M82	N/A	N/A
4-1/M82	0.79402	1
4-3-2/M82	0.76631	0.487
4-3/M82	0.97273	1
5-3/M82	1.15977	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.03082
7-2/M82	1.03689	0.385
9-3-2/M82	0.86159	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.19042	0.493
IL2-6/WTpooled	1.06611	0.788
IL7-5/WTpooled	0.91602
IL7-3/WTpooled	0.73895	0.31
IL12-4/WTpooled	0.80603	0.581
IL1-4/WTpooled	0.90047	0.834
WT/WTpooled	0.93317	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	0.98715	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.1186	0.875
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.59847
DC3000/delta hrp 24h	1.08939	0.516

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.05043	0.408
DC3000 delta B/DC3000 delta AB	1.02373	0.636

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.94118	1
Exp 36h	0.59941	0.699
Exp 60h	0.78449	0.253

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99849	1
Var 0h	1.97974	0.98
Var 12h I row2-row1	1.04243	0.736
Var 12h NI row2-row1	0.91092	0.713
Var 36h I row2-row1	1.138	0.601
Var 36h NI row2-row1	0.874	0.584
Var 60h I row2-row1	0.84673	0.439
Var 60h NI row2-row1	0.92534	0.932
Time course 0hI-0hNI	1.03089	0.852
Time course 12hI-12hNI	0.96768	0.745
Time course 36hI-36hNI	1.10826	0.401
Time course 60hI-60hNI	0.87719	0.081

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)	0.85367	0.391
transgenic ySAMdc/azygous control (breaker)	1.39417	1
transgenic ySAMdc/azygous control (red)	1.06075	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06381	0.619

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.02707	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.77834	1
Manapal/WT (break)	0.87884	1
Manapal/WT (red)	1.61773	0.137