Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.8.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11735	0.812
27DAP/17DAP	0.99527	1
39DAP/27DAP	0.79283	0.27
41DAP/39DAP	1.35987	0.442
42DAP/41DAP	1.08433	1
43DAP/42DAP	1.06511	1
47DAP/43DAP	1.06313	0.965
52DAP/47DAP	0.8373	0.548
57DAP/52DAP	1.10335	0.95

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93001	0.167
17DAP/reference	1.08398	0.442
27DAP/reference	1.01769	0.996
39DAP/reference	1.14119	0.286
41DAP/reference	1.12017	0.365
42DAP/reference	0.93614	0.12
43DAP/reference	1.05305	0.812
47DAP/reference	0.93366	0.191
52DAP/reference	0.80742	0.089
57DAP/reference	0.91546	0.086

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95676	0.595
27DAP/17DAP	1.00068	1
39DAP/27DAP	0.98697	0.925
41DAP/39DAP	1.02746	0.763
42DAP/41DAP	0.99085	0.864
43DAP/42DAP	1.03165	0.382
47DAP/43DAP	1.0158	0.926
52DAP/47DAP	0.95286	0.612
57DAP/52DAP	0.95452	0.473
57DAP/7DAP	0.94626	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87973	0.296
17DAP/reference	1.07539	0.822
27DAP/reference	1.2644	0.06
39DAP/reference	1.16925	0.157
41DAP/reference	1.4746	0.028
42DAP/reference	2.00806	0.059
43DAP/reference	1.15423	0.074
47DAP/reference	1.19399	0.37
52DAP/reference	0.83175	0.126
57DAP/reference	0.97881	0.426

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09934	0.538
17DAP/reference	1.05407	1
27DAP/reference	0.89487	0.229
39DAP/reference	0.89183	0.265
41DAP/reference	1.25526	0.513
42DAP/reference	0.92011	0.321
43DAP/reference	1.12503	0.144
47DAP/reference	0.88381	0.087
52DAP/reference	0.85033	0.072
57DAP/reference	1.26577	0.035

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17211	0.162
17DAP/reference	0.9281	0.433
27DAP/reference	1.01718	1
39DAP/reference	0.93464	0.544
41DAP/reference	0.97212	0.56
42DAP/reference	1.43469	0.321
43DAP/reference	0.85754	0.079
47DAP/reference	1.00519	0.731
52DAP/reference	1.11169	0.491
57DAP/reference	0.88097	0.217

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00365	1
26DAP/20DAP	0.95879	1
34DAP/26DAP	1.03137	1
51DAP/34DAP	1.00025	1
52DAP/51DAP	1.00937	0.888
53DAP/52DAP	1.01961	0.868
55DAP/53DAP	1.01809	0.904
57DAP/55DAP	0.99328	0.902
62DAP/57DAP	1.13832	0.8
68DAP/62DAP	0.81312	0.345
68DAP/14DAP	1.72798	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.93293	0.175

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.86775	0.317
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03907	0.877
1-1-2/M82	0.81528
12-2/M82	1.11866
12-4/M82	1.19319	1
1-3/M82	N/A	N/A
2-1-1/M82	1.33356
2-1/M82	N/A	N/A
2-6/M82	1.14558	0.329
3-2/M82	0.78386
4-1-1/M82	0.92839
4-1/M82	1.06847	1
4-3-2/M82	0.72823
4-3/M82	0.78305
5-3/M82	0.82594
6-2/M82	N/A	N/A
6-3/M82	1.08641
7-1/M82	N/A	N/A
7-2/M82	0.84276	0.881
9-3-2/M82	0.91821	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.24889	0.788
IL7-5/WTpooled	1.93629
IL7-3/WTpooled	1.0604
IL12-4/WTpooled	0.78095	0.71
IL1-4/WTpooled	1.16145	1
WT/WTpooled	0.76749	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	1.02123	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.15296	0.692
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.07075	1
DC3000/delta hrp 24h	1.02491	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.01409	0.556
DC3000 delta B/DC3000 delta AB	0.97673	0.805

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95614	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.12404	0.58
Var 12h NI row2-row1	0.81886	0.494
Var 36h I row2-row1	0.89677	0.575
Var 36h NI row2-row1	1.00269	1
Var 60h I row2-row1	1.77163	0.562
Var 60h NI row2-row1	1.35215	0.904
Time course 0hI-0hNI	1.12662	0.799
Time course 12hI-12hNI	0.98205	0.924
Time course 36hI-36hNI	0.86064	0.052
Time course 60hI-60hNI	0.88866	0.081

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)	1.01819	0.931
transgenic ySAMdc/azygous control (breaker)	2.06628	0.162
transgenic ySAMdc/azygous control (red)	1.19726	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95043	0.227

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.11608	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.0764	0.105
Manapal/WT (break)	1.02849	1
Manapal/WT (red)	0.97953	0.503