Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.1.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94313	0.617
27DAP/17DAP	1.0163	1
39DAP/27DAP	0.9297	0.62
41DAP/39DAP	1.2276	0.691
42DAP/41DAP	1.00564	1
43DAP/42DAP	1.00481	0.937
47DAP/43DAP	1.26583	0.563
52DAP/47DAP	1.03745	0.948
57DAP/52DAP	1.00454	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81819	0.075
17DAP/reference	0.85163	0.169
27DAP/reference	1.26226	0.039
39DAP/reference	1.0766	0.27
41DAP/reference	0.90268	0.201
42DAP/reference	1.0923	0.338
43DAP/reference	0.89069	0.17
47DAP/reference	1.10048	0.215
52DAP/reference	0.99718	0.598
57DAP/reference	0.87304	0.112

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16242	0.356
27DAP/17DAP	0.9	0.58
39DAP/27DAP	0.88957	0.502
41DAP/39DAP	1.06577	0.79
42DAP/41DAP	1.04477	0.81
43DAP/42DAP	1.05669	0.746
47DAP/43DAP	0.99798	0.997
52DAP/47DAP	1.07568	0.742
57DAP/52DAP	0.93433	0.484
57DAP/7DAP	0.97986	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08078	0.564
17DAP/reference	1.01721	0.693
27DAP/reference	1.13182	0.371
39DAP/reference	0.73945	0.034
41DAP/reference	0.64774	0.013
42DAP/reference	0.81691	0.123
43DAP/reference	0.99362	0.637
47DAP/reference	0.89988	0.293
52DAP/reference	0.89952	0.126
57DAP/reference	1.06139	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99931	0.848
17DAP/reference	1.00569	0.747
27DAP/reference	1.14376	0.367
39DAP/reference	1.20156	0.116
41DAP/reference	1.00742	0.57
42DAP/reference	1.08576	0.324
43DAP/reference	1.03714	0.875
47DAP/reference	0.93935	0.277
52DAP/reference	1.00317	0.713
57DAP/reference	0.89707	0.079

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84988	0.135
17DAP/reference	0.94251	0.426
27DAP/reference	0.97825	0.594
39DAP/reference	0.97689	0.591
41DAP/reference	0.90845	0.119
42DAP/reference	0.94911	0.552
43DAP/reference	0.90855	0.216
47DAP/reference	0.83767	0.049
52DAP/reference	1.37195	0.463
57DAP/reference	1.13865	0.706

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.18043	0.966
26DAP/20DAP	1.11259	0.654
34DAP/26DAP	1.14993	1
51DAP/34DAP	0.84837	0.563
52DAP/51DAP	0.91439	1
53DAP/52DAP	1.13972	0.643
55DAP/53DAP	0.94477	0.376
57DAP/55DAP	1.05464	0.969
62DAP/57DAP	0.87634	0.681
68DAP/62DAP	1.16095	0.367
68DAP/14DAP	1.09099	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.08784	0.527

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.03179	1
Mature Green Tomato/Ripe Tomato	0.98234	0.611
Immature Eggplant/Mature Eggplant	0.977	0.808
Ripe Pepper/Ripe Tomato	0.85249	1
Mature Eggplant/Ripe Tomato	0.56348	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.85157	1
1-3/M82	1.72276
2-1-1/M82	0.95567
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.08044	1
5-3/M82	0.73077	0.642
6-2/M82	N/A	N/A
6-3/M82	1.01375
7-1/M82	0.92067
7-2/M82	0.97469
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.06752	0.365
IL2-6/WTpooled	0.95875	1
IL7-5/WTpooled	1.16949
IL7-3/WTpooled	1.11723	1
IL12-4/WTpooled	0.85424	0.478
IL1-4/WTpooled	0.95322	0.562
WT/WTpooled	0.83858	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	0.90183	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06794	0.921
DC3000/delta hrp 6h	1.23839	1
DC3000/delta hrp 12h	0.98491	1
DC3000/delta hrp 24h	0.92881	0.564

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.018	0.476
DC3000 delta B/DC3000 delta AB	1.18859	0.225

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.04652	1
Exp 36h	0.8437	0.404
Exp 60h	0.95427	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98038	1
Var 0h	0.96774	1
Var 12h I row2-row1	1.21787	0.692
Var 12h NI row2-row1	1.0948	0.649
Var 36h I row2-row1	1.21768	0.908
Var 36h NI row2-row1	1.22063	1
Var 60h I row2-row1	1.38592
Var 60h NI row2-row1	0.99203	1
Time course 0hI-0hNI	0.93532	0.489
Time course 12hI-12hNI	0.88794	0.173
Time course 36hI-36hNI	0.93208	0.274
Time course 60hI-60hNI	0.85713	0.009

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)	0.94361	0.409
transgenic ySAMdc/azygous control (breaker)	1.2089	0.248
transgenic ySAMdc/azygous control (red)	0.9605	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.22705	0.046

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.97299	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.81681	1
Manapal/WT (break)	0.91496	1
Manapal/WT (red)	1.1305	1