Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.15.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0616	0.739
27DAP/17DAP	1.07622	0.872
39DAP/27DAP	0.79336	0.399
41DAP/39DAP	1.404	0.284
42DAP/41DAP	0.88567	1
43DAP/42DAP	0.96393	0.895
47DAP/43DAP	1.06387	0.926
52DAP/47DAP	1.09758	0.757
57DAP/52DAP	1.02123	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92664	0.254
17DAP/reference	1.01598	0.546
27DAP/reference	1.05212	0.205
39DAP/reference	1.02419	0.343
41DAP/reference	1.00395	1
42DAP/reference	1.01447	0.731
43DAP/reference	1.00893	0.899
47DAP/reference	1.00946	1
52DAP/reference	0.98186	0.53
57DAP/reference	0.91224	0.186

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01155	0.899
27DAP/17DAP	0.98165	0.854
39DAP/27DAP	1.00276	0.874
41DAP/39DAP	1.04842	0.801
42DAP/41DAP	0.97546	0.764
43DAP/42DAP	0.97264	0.576
47DAP/43DAP	0.9668	0.781
52DAP/47DAP	1.02373	0.907
57DAP/52DAP	1.02495	0.891
57DAP/7DAP	1.00114	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86781	0.104
17DAP/reference	0.91497	0.338
27DAP/reference	0.89745	0.101
39DAP/reference	0.99165	0.64
41DAP/reference	0.9647	0.412
42DAP/reference	0.98335	0.289
43DAP/reference	0.9837	0.527
47DAP/reference	0.96594	0.293
52DAP/reference	1.03816	0.886
57DAP/reference	0.97511	0.367

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92028	0.119
17DAP/reference	0.99886	0.805
27DAP/reference	0.93311	0.123
39DAP/reference	0.93397	0.183
41DAP/reference	0.95197	0.291
42DAP/reference	1.05372	0.455
43DAP/reference	0.94511	0.298
47DAP/reference	1.08625	0.116
52DAP/reference	0.97133	0.051
57DAP/reference	0.96858	0.338

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94228	0.249
17DAP/reference	0.98267	0.636
27DAP/reference	1.00642	0.967
39DAP/reference	0.95318	0.246
41DAP/reference	0.98447	0.618
42DAP/reference	0.86106	0.025
43DAP/reference	0.90969	0.048
47DAP/reference	1.03011	0.543
52DAP/reference	0.84882	0.342
57DAP/reference	0.99722	0.814

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0237	0.966
26DAP/20DAP	0.95268	0.512
34DAP/26DAP	1.00054	1
51DAP/34DAP	0.99379	0.927
52DAP/51DAP	0.9856	1
53DAP/52DAP	0.92987	0.336
55DAP/53DAP	0.95222	0.417
57DAP/55DAP	1.13769	0.559
62DAP/57DAP	0.85705	0.681
68DAP/62DAP	1.10987	0.413
68DAP/14DAP	1.1526	0.636

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97222	0.52

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.83073	0.377
Mature Green Tomato/Ripe Tomato	0.86526	0.047
Immature Eggplant/Mature Eggplant	1.01951	0.659
Ripe Pepper/Ripe Tomato	3.20553	1
Mature Eggplant/Ripe Tomato	7.44406	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98115	0.961
1-1-2/M82	1.00218	1
12-2/M82	1.04375	1
12-4/M82	0.9958	1
1-3/M82	0.9923	1
2-1-1/M82	0.92829	0.565
2-1/M82	1.42602	0.345
2-6/M82	0.92796	1
3-2/M82	1.09169
4-1-1/M82	0.97215	1
4-1/M82	0.82447	0.737
4-3-2/M82	1.32596	0.508
4-3/M82	1.11172	1
5-3/M82	1.00731	1
6-2/M82	0.97321	1
6-3/M82	1.02877	1
7-1/M82	1.08328	1
7-2/M82	1.05208	1
9-3-2/M82	0.65861	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.08209	0.493
IL2-6/WTpooled	0.78942	1
IL7-5/WTpooled	1.02369
IL7-3/WTpooled	0.87588	1
IL12-4/WTpooled	1.36972	0.538
IL1-4/WTpooled	0.96902	1
WT/WTpooled	1.102	0.777

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	0.59933

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00114	1
DC3000/delta hrp 6h	0.87566	0.95
DC3000/delta hrp 12h	0.85441	1
DC3000/delta hrp 24h	0.98878	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.26671	0.042
DC3000 delta B/DC3000 delta AB	1.24504	0.167

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.72999	1
Exp 36h	0.7169	0.623
Exp 60h	0.65154	0.259

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00335	1
Var 0h	1.01504	1
Var 12h I row2-row1	1.21448	0.201
Var 12h NI row2-row1	1.02791	1
Var 36h I row2-row1	0.78527	0.805
Var 36h NI row2-row1	0.82342	0.478
Var 60h I row2-row1	1.19699	1
Var 60h NI row2-row1	0.91556	0.932
Time course 0hI-0hNI	1.02914	1
Time course 12hI-12hNI	1.07478	0.63
Time course 36hI-36hNI	1.01059	0.89
Time course 60hI-60hNI	1.42303	0.025

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)	1.02207	0.748
transgenic ySAMdc/azygous control (breaker)	0.66673	0.251
transgenic ySAMdc/azygous control (red)	1.64028	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99587	0.552

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.70628	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.54061	0.172
Manapal/WT (break)	0.57831	0.333
Manapal/WT (red)	0.64549	0.181