Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.18.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25637	0.244
27DAP/17DAP	1.05035	0.853
39DAP/27DAP	0.90635	0.641
41DAP/39DAP	0.97136	0.785
42DAP/41DAP	0.93639	1
43DAP/42DAP	1.0098	0.937
47DAP/43DAP	1.07932	0.926
52DAP/47DAP	0.93144	0.752
57DAP/52DAP	0.82433	0.827

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87603	0.063
17DAP/reference	0.8663	0.014
27DAP/reference	0.88518	0.157
39DAP/reference	1.06864	0.445
41DAP/reference	0.94258	0.201
42DAP/reference	1.02373	1
43DAP/reference	0.94317	0.287
47DAP/reference	0.94037	0.279
52DAP/reference	0.98732	0.58
57DAP/reference	0.93838	0.044

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1214	0.148
27DAP/17DAP	1.23265	0.5
39DAP/27DAP	1.01913	0.832
41DAP/39DAP	0.90481	0.747
42DAP/41DAP	1.07682	0.976
43DAP/42DAP	0.96772	0.729
47DAP/43DAP	1.02995	1
52DAP/47DAP	0.97161	0.899
57DAP/52DAP	1.00224	0.905
57DAP/7DAP	0.73757	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93401	0.55
17DAP/reference	0.97929	0.447
27DAP/reference	1.29493	0.049
39DAP/reference	0.90197	0.073
41DAP/reference	1.0046	0.848
42DAP/reference	1.14322	0.018
43DAP/reference	0.86378	0.027
47DAP/reference	0.99549	1
52DAP/reference	0.90113	0.106
57DAP/reference	1.02399	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16258	0.038
17DAP/reference	1.18905	0.039
27DAP/reference	1.30353	0.071
39DAP/reference	1.06371	0.67
41DAP/reference	1.21994	0.012
42DAP/reference	1.28806	0.018
43DAP/reference	1.6214	0.015
47DAP/reference	1.31656	0.01
52DAP/reference	1.47735	0.006
57DAP/reference	1.36368	0.008

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85748	0.074
17DAP/reference	1.05025	0.842
27DAP/reference	0.89545	0.184
39DAP/reference	0.91394	0.199
41DAP/reference	1.17461	0.554
42DAP/reference	1.3334	0.015
43DAP/reference	0.96928	0.523
47DAP/reference	1.15603	0.011
52DAP/reference	1.15744	0.138
57DAP/reference	1.32978	0.017

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94479	0.997
26DAP/20DAP	0.93991	1
34DAP/26DAP	0.86758	0.666
51DAP/34DAP	0.81502	0.132
52DAP/51DAP	1.26474	0.103
53DAP/52DAP	0.98931	0.902
55DAP/53DAP	1.08522	0.693
57DAP/55DAP	1.37595	0.167
62DAP/57DAP	1.08378	0.723
68DAP/62DAP	0.95684	0.769
68DAP/14DAP	0.94526	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.76241	0.122

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.82136	0.063
Mature Green Tomato/Ripe Tomato	1.95741	0.478
Immature Eggplant/Mature Eggplant	0.69926	0.062
Ripe Pepper/Ripe Tomato	1.26554	1
Mature Eggplant/Ripe Tomato	2.59389	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05435	1
1-1-2/M82	1.05034	1
12-2/M82	1.02987
12-4/M82	1.10682	1
1-3/M82	0.84668	0.376
2-1-1/M82	0.98349	1
2-1/M82	1.21901
2-6/M82	1.0409	1
3-2/M82	1.04986
4-1-1/M82	0.93898	1
4-1/M82	0.96392
4-3-2/M82	0.86238
4-3/M82	0.96288	0.509
5-3/M82	1.09328	0.572
6-2/M82	0.694
6-3/M82	0.99781	1
7-1/M82	1.04591
7-2/M82	1.12971	0.385
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.10791
IL7-3/WTpooled	2.05404
IL12-4/WTpooled	1.10751	0.839
IL1-4/WTpooled	0.76441	0.699
WT/WTpooled	1.20277	0.805

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	1.03477	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05695	0.921
DC3000/delta hrp 6h	0.93717
DC3000/delta hrp 12h	1.20144	1
DC3000/delta hrp 24h	1.02658	0.779

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	1.17208	0.232

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.14267	0.196
Exp 36h	2.24442	0.326
Exp 60h	1.85154	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.8986
Var 0h	N/A	N/A
Var 12h I row2-row1	1.11608	0.208
Var 12h NI row2-row1	0.82111	0.438
Var 36h I row2-row1	0.94471	1
Var 36h NI row2-row1	0.83401	0.706
Var 60h I row2-row1	6.75017	1
Var 60h NI row2-row1	1.16172	0.904
Time course 0hI-0hNI	1.03128	1
Time course 12hI-12hNI	1.02265	0.854
Time course 36hI-36hNI	1.05037	0.401
Time course 60hI-60hNI	1.09266	0.216

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)	0.93135	0.567
transgenic ySAMdc/azygous control (breaker)	1.53587	0.178
transgenic ySAMdc/azygous control (red)	1.23075	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00586	0.687

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.91108	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.9275	1
Manapal/WT (break)	0.55547	1
Manapal/WT (red)	1.20978	0.413