Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.14.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88797	0.503
27DAP/17DAP	0.98444	1
39DAP/27DAP	1.2573	0.533
41DAP/39DAP	0.96582	0.841
42DAP/41DAP	1.04424	0.962
43DAP/42DAP	0.78428	0.467
47DAP/43DAP	1.10158	0.733
52DAP/47DAP	1.08476	0.891
57DAP/52DAP	0.99466	0.974

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88494	0.062
17DAP/reference	0.91058	0.24
27DAP/reference	0.85611	0.187
39DAP/reference	1.01865	0.842
41DAP/reference	0.84417	0.065
42DAP/reference	1.09711	0.485
43DAP/reference	0.84059	0.093
47DAP/reference	0.98372	0.535
52DAP/reference	0.94411	0.35
57DAP/reference	1.08951	0.564

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90581	0.509
27DAP/17DAP	0.87061	0.782
39DAP/27DAP	1.19028	0.429
41DAP/39DAP	0.9055	0.465
42DAP/41DAP	1.17842	0.354
43DAP/42DAP	0.932	0.431
47DAP/43DAP	1.01145	0.973
52DAP/47DAP	0.95773	0.814
57DAP/52DAP	1.29656	0.156
57DAP/7DAP	1.01153	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94582	0.361
17DAP/reference	1.00023	0.693
27DAP/reference	1.02215	0.804
39DAP/reference	0.8995	0.198
41DAP/reference	0.78884	0.107
42DAP/reference	0.79656	0.038
43DAP/reference	0.94819	0.279
47DAP/reference	0.927	0.383
52DAP/reference	0.87644	0.097
57DAP/reference	0.93983	0.199

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00348	0.93
17DAP/reference	0.81647	0.139
27DAP/reference	0.92266	0.257
39DAP/reference	1.10907	0.806
41DAP/reference	1.05387	1
42DAP/reference	0.95656	0.237
43DAP/reference	1.08005	0.673
47DAP/reference	1.0255	1
52DAP/reference	0.88229	0.327
57DAP/reference	0.5973	0.243

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93005	0.23
17DAP/reference	0.9166	0.286
27DAP/reference	2.72062	0.447
39DAP/reference	0.93513	0.101
41DAP/reference	1.03286	1
42DAP/reference	1.05632	0.556
43DAP/reference	1.01739	0.973
47DAP/reference	0.87555	0.24
52DAP/reference	1.08317	0.566
57DAP/reference	1.28539	0.022

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	2.42702	0.966
26DAP/20DAP	1.08208	0.834
34DAP/26DAP	1.45396	0.542
51DAP/34DAP	1.11895	0.627
52DAP/51DAP	1.10023	0.704
53DAP/52DAP	1.72182	0.029
55DAP/53DAP	1.11218	0.584
57DAP/55DAP	1.10844	1
62DAP/57DAP	0.62434	0.028
68DAP/62DAP	1.38625	0.646
68DAP/14DAP	0.88677	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.60544	0.039

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.47883	0.094
Mature Green Tomato/Ripe Tomato	0.74192	0.045
Immature Eggplant/Mature Eggplant	1.71178	0.05
Ripe Pepper/Ripe Tomato	0.78359	0.224
Mature Eggplant/Ripe Tomato	0.60667	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02322	1
1-1-2/M82	0.93669
12-2/M82	1.07248	1
12-4/M82	0.98418	1
1-3/M82	1.41496	0.479
2-1-1/M82	0.72675	0.465
2-1/M82	1.15186	1
2-6/M82	0.95842	1
3-2/M82	0.71643
4-1-1/M82	0.91609	1
4-1/M82	0.7687
4-3-2/M82	0.93775	1
4-3/M82	1.0363	1
5-3/M82	1.18308	0.572
6-2/M82	1.16964	1
6-3/M82	1.01107	1
7-1/M82	1.05557
7-2/M82	0.95325	0.881
9-3-2/M82	0.9806	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.33305	0.277
IL2-6/WTpooled	0.9603	0.383
IL7-5/WTpooled	1.25302	0.75
IL7-3/WTpooled	0.98511	1
IL12-4/WTpooled	0.99737	1
IL1-4/WTpooled	1.05005	1
WT/WTpooled	0.94404	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	0.89725	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08157	0.894
DC3000/delta hrp 6h	0.91774	0.95
DC3000/delta hrp 12h	1.00578	1
DC3000/delta hrp 24h	1.53543	0.03

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.44814	0.044
DC3000 delta B/DC3000 delta AB	1.35198	0.115

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.14199	1
Exp 36h	1.14365	1
Exp 60h	1.34154	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0205	1
Var 0h	0.55832	0.98
Var 12h I row2-row1	1.1327	0.204
Var 12h NI row2-row1	1.12309	1
Var 36h I row2-row1	1.17049	0.41
Var 36h NI row2-row1	0.88072	0.645
Var 60h I row2-row1	0.99752	1
Var 60h NI row2-row1	0.87292	0.63
Time course 0hI-0hNI	1.03719	0.833
Time course 12hI-12hNI	1.41433	0.015
Time course 36hI-36hNI	1.71747	0.005
Time course 60hI-60hNI	2.13775	0.008

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)	1.0447	0.287
transgenic ySAMdc/azygous control (breaker)	0.85579	0.15
transgenic ySAMdc/azygous control (red)	0.87032	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02141	0.495

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.54857	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.01316	1
Manapal/WT (break)	0.74989	0.333
Manapal/WT (red)	0.70858	0.181