Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.19.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03592	0.867
27DAP/17DAP	0.9906	0.939
39DAP/27DAP	1.29889	0.618
41DAP/39DAP	0.82988	0.387
42DAP/41DAP	1.49954	0.587
43DAP/42DAP	1.29931	0.768
47DAP/43DAP	2.74217	0.213
52DAP/47DAP	0.57056	0.121
57DAP/52DAP	1.35947	0.92

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8545	0.136
17DAP/reference	1.04608	0.442
27DAP/reference	1.07655	0.529
39DAP/reference	1.14119	0.072
41DAP/reference	1.06864	0.365
42DAP/reference	1.07355	0.182
43DAP/reference	2.07721	0.006
47DAP/reference	2.34676	0.001
52DAP/reference	1.84028	0.007
57DAP/reference	1.63843	0.015

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.17112	0.278
27DAP/17DAP	1.22407	0.447
39DAP/27DAP	1.10945	0.646
41DAP/39DAP	0.78224	0.236
42DAP/41DAP	0.99641	0.864
43DAP/42DAP	0.93976	0.558
47DAP/43DAP	1.00511	1
52DAP/47DAP	1.65654	0.066
57DAP/52DAP	0.88303	0.384
57DAP/7DAP	1.37157	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.70389	0.062
17DAP/reference	0.8464	0.039
27DAP/reference	0.77539	0.015
39DAP/reference	0.76295	0.034
41DAP/reference	0.77529	0.043
42DAP/reference	0.73835	0.05
43DAP/reference	0.72331	0.049
47DAP/reference	0.95137	0.504
52DAP/reference	0.69536	0.023
57DAP/reference	0.66694	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7728	0.008
17DAP/reference	0.83171	0.008
27DAP/reference	1.00446	0.711
39DAP/reference	0.94153	0.314
41DAP/reference	0.98489	0.519
42DAP/reference	1.06242	0.408
43DAP/reference	0.83961	0.152
47DAP/reference	0.96622	0.227
52DAP/reference	0.98668	0.537
57DAP/reference	0.85729	0.02

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.68566	0.039
17DAP/reference	0.70015	0.052
27DAP/reference	0.79484	0.035
39DAP/reference	0.87018	0.037
41DAP/reference	0.78217	0.05
42DAP/reference	0.85236	0.22
43DAP/reference	0.98779	0.66
47DAP/reference	1.87283	0.005
52DAP/reference	2.04554	0.03
57DAP/reference	1.15255	0.141

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9794	1
26DAP/20DAP	1.32296	0.404
34DAP/26DAP	0.88947	0.364
51DAP/34DAP	1.34908	0.055
52DAP/51DAP	0.75885	0.151
53DAP/52DAP	0.58151	0.049
55DAP/53DAP	0.35949	0.016
57DAP/55DAP	1.02473	0.961
62DAP/57DAP	1.31954	0.445
68DAP/62DAP	0.94474	0.787
68DAP/14DAP	1.06909	0.656

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.12434	0.369

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.35705	0.078
Mature Green Tomato/Ripe Tomato	0.69177	0.042
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.21376	0.224
Mature Eggplant/Ripe Tomato	0.04241	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.92845	0.841
1-1-2/M82	1.17647	1
12-2/M82	0.87805	0.74
12-4/M82	1.36857	1
1-3/M82	2.44314	0.277
2-1-1/M82	0.82666	0.465
2-1/M82	0.99245	1
2-6/M82	0.94925	1
3-2/M82	0.99236	1
4-1-1/M82	1.09892	1
4-1/M82	1.00314
4-3-2/M82	1.32043	0.284
4-3/M82	0.89374	1
5-3/M82	0.94026	1
6-2/M82	0.95716	1
6-3/M82	1.01664	1
7-1/M82	0.95801	0.803
7-2/M82	1.01852	1
9-3-2/M82	1.35669	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.93497	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.79229	0.31
IL12-4/WTpooled	0.91817	1
IL1-4/WTpooled	0.87603	0.699
WT/WTpooled	0.99586	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	0.99456	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09294	0.914
DC3000/delta hrp 6h	0.93241	0.95
DC3000/delta hrp 12h	1.00801	1
DC3000/delta hrp 24h	1.36151	0.095

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.2145	0.11
DC3000 delta B/DC3000 delta AB	1.20774	0.24

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.05991	1
Exp 36h	0.86617	0.397
Exp 60h	1.0057	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99969	1
Var 0h	1.08339	1
Var 12h I row2-row1	0.9423	0.705
Var 12h NI row2-row1	1.11648	1
Var 36h I row2-row1	1.02287	1
Var 36h NI row2-row1	1.49646	0.482
Var 60h I row2-row1	0.70373	0.439
Var 60h NI row2-row1	1.03128	1
Time course 0hI-0hNI	1.03332	0.867
Time course 12hI-12hNI	0.90862	0.264
Time course 36hI-36hNI	0.783	0.026
Time course 60hI-60hNI	0.93745	0.319

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)	0.81558	0.391
transgenic ySAMdc/azygous control (breaker)	1.77583	0.178
transgenic ySAMdc/azygous control (red)	1.17599	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99583	0.651

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.86061	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.05393	1
Manapal/WT (red)	0.95644	0.728