Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.20.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07188	0.997
27DAP/17DAP	1.10145	0.88
39DAP/27DAP	0.84356	0.462
41DAP/39DAP	1.49512	0.342
42DAP/41DAP	0.82396	1
43DAP/42DAP	0.92904	0.858
47DAP/43DAP	1.03071	0.847
52DAP/47DAP	1.68132	0.299
57DAP/52DAP	0.91686	0.85

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02871	1
17DAP/reference	0.84564	0.393
27DAP/reference	1.10119	0.04
39DAP/reference	0.8258	0.36
41DAP/reference	1.17556	0.047
42DAP/reference	1.15847	0.032
43DAP/reference	0.99812	0.924
47DAP/reference	1.10684	0.379
52DAP/reference	0.92783	0.292
57DAP/reference	0.71136	0.007

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03885	0.801
27DAP/17DAP	0.9495	0.943
39DAP/27DAP	2.63769	0.108
41DAP/39DAP	0.69002	0.793
42DAP/41DAP	1.36705	0.904
43DAP/42DAP	N/A	N/A
47DAP/43DAP	0.61078	0.656
52DAP/47DAP	0.26386
57DAP/52DAP	0.8116	0.591
57DAP/7DAP	0.67677	0.159

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89872	0.078
17DAP/reference	0.85012	0.021
27DAP/reference	0.859	0.031
39DAP/reference	0.77137	0.012
41DAP/reference	0.74213	0.016
42DAP/reference	0.8354	0.053
43DAP/reference	0.94614	0.305
47DAP/reference	0.92133	0.101
52DAP/reference	0.8057	0.033
57DAP/reference	0.86964	0.05

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00414	0.97
17DAP/reference	0.97119	0.499
27DAP/reference	1.23803	0.345
39DAP/reference	1.16148	0.602
41DAP/reference	1.16221	0.672
42DAP/reference	0.76229
43DAP/reference	1.04501	1
47DAP/reference	0.76103
52DAP/reference	1.01133	0.761
57DAP/reference	1.12609	0.172

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86289	0.059
17DAP/reference	0.95648	0.477
27DAP/reference	0.99251	0.727
39DAP/reference	0.84895	0.015
41DAP/reference	0.8965	0.086
42DAP/reference	0.81641	0.108
43DAP/reference	0.91665	0.305
47DAP/reference	0.97508	0.538
52DAP/reference	1.2249	0.341
57DAP/reference	0.84131	0.268

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03486	0.966
26DAP/20DAP	0.41686
34DAP/26DAP	1.93117
51DAP/34DAP	N/A	N/A
52DAP/51DAP	N/A	N/A
53DAP/52DAP	1.73781	0.048
55DAP/53DAP	1.82269	0.911
57DAP/55DAP	1.05121	0.543
62DAP/57DAP	0.9375	0.871
68DAP/62DAP	0.82158	0.464
68DAP/14DAP	0.62226	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.35442	0.663

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.28413	0.059
Mature Green Tomato/Ripe Tomato	0.73895	0.107
Immature Eggplant/Mature Eggplant	1.07674	0.348
Ripe Pepper/Ripe Tomato	0.94927	1
Mature Eggplant/Ripe Tomato	1.60533	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.12841	1
1-1-2/M82	0.9631	1
12-2/M82	1.09375	1
12-4/M82	0.78978	0.619
1-3/M82	0.80312	0.441
2-1-1/M82	0.80228	0.465
2-1/M82	0.95652	0.325
2-6/M82	0.9799
3-2/M82	0.86255	0.455
4-1-1/M82	1.04203	0.968
4-1/M82	1.27755	1
4-3-2/M82	0.93917	1
4-3/M82	1.04303	1
5-3/M82	1.01703	1
6-2/M82	0.75512
6-3/M82	1.18639	1
7-1/M82	1.55308
7-2/M82	1.04162	1
9-3-2/M82	0.93131	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.06096	1
IL2-6/WTpooled	1.14328	0.659
IL7-5/WTpooled	1.35213	0.792
IL7-3/WTpooled	1.55279	0.362
IL12-4/WTpooled	1.21558	0.839
IL1-4/WTpooled	1.28212	0.426
WT/WTpooled	1.12282	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	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	1.01325	0.921
DC3000/delta hrp 6h	1.01881	1
DC3000/delta hrp 12h	1.01824	1
DC3000/delta hrp 24h	1.13806	0.438

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00839	1
Exp 36h	1.17678	0.693
Exp 60h	1.08212	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.0819	0.212
transgenic ySAMdc/azygous control (breaker)	0.82351	0.173
transgenic ySAMdc/azygous control (red)	0.95806	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97212	0.323

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.80458	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.9219	1
Manapal/WT (break)	0.98967	1
Manapal/WT (red)	0.83361	0.216