Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.15.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06805	0.786
27DAP/17DAP	1.10747	0.845
39DAP/27DAP	0.87992	0.414
41DAP/39DAP	1.39443	0.255
42DAP/41DAP	1.00591	1
43DAP/42DAP	1.05142	1
47DAP/43DAP	0.94664	0.815
52DAP/47DAP	0.95541	0.854
57DAP/52DAP	1.18279	0.737

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02966	0.544
17DAP/reference	1.02363	0.185
27DAP/reference	0.98963	0.683
39DAP/reference	1.06718	0.106
41DAP/reference	0.96544	0.542
42DAP/reference	1.01237	0.731
43DAP/reference	0.9899	0.805
47DAP/reference	0.98861	0.445
52DAP/reference	1.00364	0.791
57DAP/reference	0.95929	0.294

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01016	0.975
27DAP/17DAP	0.98839	0.887
39DAP/27DAP	1.00355	0.862
41DAP/39DAP	1.0542	0.612
42DAP/41DAP	0.99869	0.925
43DAP/42DAP	0.99271	0.928
47DAP/43DAP	1.00847	0.941
52DAP/47DAP	0.97587	0.898
57DAP/52DAP	1.03153	0.818
57DAP/7DAP	0.98413	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89358
17DAP/reference	0.99038	0.599
27DAP/reference	1.00033	1
39DAP/reference	0.98999	0.198
41DAP/reference	0.98764	0.512
42DAP/reference	0.96182	0.436
43DAP/reference	0.95103	0.22
47DAP/reference	0.95588	0.383
52DAP/reference	0.93336	0.126
57DAP/reference	0.99843	0.748

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99627	0.93
17DAP/reference	1.00117	0.924
27DAP/reference	0.99045	0.642
39DAP/reference	0.93346	0.122
41DAP/reference	0.95751	0.307
42DAP/reference	0.98334	0.534
43DAP/reference	0.98697	0.67
47DAP/reference	1.08311	0.212
52DAP/reference	0.96627	0.156
57DAP/reference	0.92122	0.058

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99791	0.804
17DAP/reference	0.99592	0.839
27DAP/reference	1.01486	0.749
39DAP/reference	1.05273	0.483
41DAP/reference	0.97909	0.512
42DAP/reference	0.92383	0.22
43DAP/reference	0.95487	0.365
47DAP/reference	1.04241	0.443
52DAP/reference	0.99771	0.908
57DAP/reference	0.93588	0.177

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02654	0.966
26DAP/20DAP	0.99608	1
34DAP/26DAP	0.96388	0.848
51DAP/34DAP	0.9575	0.66
52DAP/51DAP	1.01043	0.939
53DAP/52DAP	1.06058	0.537
55DAP/53DAP	0.93123	0.062
57DAP/55DAP	1.13133	0.826
62DAP/57DAP	1.22966	0.006
68DAP/62DAP	0.95468	0.787
68DAP/14DAP	0.96873	0.075

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.0017	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.1478	0.417
Mature Green Tomato/Ripe Tomato	1.4782	0.331
Immature Eggplant/Mature Eggplant	0.78716	0.254
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.65102

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96126	0.944
1-1-2/M82	0.91552	1
12-2/M82	0.91449	0.955
12-4/M82	1.00774	1
1-3/M82	0.938	0.441
2-1-1/M82	0.95106	0.683
2-1/M82	1.48009	1
2-6/M82	0.95661	1
3-2/M82	0.99375
4-1-1/M82	1.15203	0.968
4-1/M82	0.94295
4-3-2/M82	0.85682	1
4-3/M82	0.95209	0.72
5-3/M82	0.97343	1
6-2/M82	0.98929	1
6-3/M82	1.02291	1
7-1/M82	1.01164
7-2/M82	0.9512	0.796
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.03957
IL2-6/WTpooled	0.92209	0.348
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.0278	1
IL12-4/WTpooled	1.12521	0.646
IL1-4/WTpooled	1.48981	1
WT/WTpooled	0.95702	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	1.04039	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03994	0.823
DC3000/delta hrp 6h	1.11319	1
DC3000/delta hrp 12h	1.12471	1
DC3000/delta hrp 24h	1.04353	0.655

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.10271	0.145
DC3000 delta B/DC3000 delta AB	1.09645	0.353

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	0.99776	1
Var 0h	1.48958	0.98
Var 12h I row2-row1	1.11962	0.196
Var 12h NI row2-row1	0.96113	0.82
Var 36h I row2-row1	0.7673	0.805
Var 36h NI row2-row1	0.87073	0.61
Var 60h I row2-row1	1.12432	1
Var 60h NI row2-row1	1.11305	1
Time course 0hI-0hNI	1.07558	0.852
Time course 12hI-12hNI	1.112	0.43
Time course 36hI-36hNI	0.97992	0.524
Time course 60hI-60hNI	1.2309	0.06

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)	0.9362	0.306
transgenic ySAMdc/azygous control (breaker)	1.00763	1
transgenic ySAMdc/azygous control (red)	1.1845	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00082	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.11195	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.70226	0.172
Manapal/WT (break)	1.45903	0.183
Manapal/WT (red)	1.61007	0.413