Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.16.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93342	0.596
27DAP/17DAP	0.88461	0.72
39DAP/27DAP	1.35845	0.272
41DAP/39DAP	0.92067	0.655
42DAP/41DAP	0.95562	1
43DAP/42DAP	0.92624	0.841
47DAP/43DAP	0.99363	0.902
52DAP/47DAP	1.19848	0.724
57DAP/52DAP	0.96208	0.947

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.55624	0.009
17DAP/reference	1.0799	0.161
27DAP/reference	1.09341	0.093
39DAP/reference	1.05145	0.294
41DAP/reference	1.35913	0.014
42DAP/reference	1.35593	0.001
43DAP/reference	1.06947	0.678
47DAP/reference	1.1803	0.006
52DAP/reference	1.41253	0.021
57DAP/reference	1.09573	0.529

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9841	0.782
27DAP/17DAP	1.01091	0.969
39DAP/27DAP	0.97784	0.812
41DAP/39DAP	1.05846	0.705
42DAP/41DAP	1.06177	0.559
43DAP/42DAP	0.96166	0.503
47DAP/43DAP	0.99527	0.989
52DAP/47DAP	0.99478	0.97
57DAP/52DAP	1.07452	0.571
57DAP/7DAP	1.14143	0.23

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00358	1
17DAP/reference	0.91819	0.056
27DAP/reference	0.81072	0.026
39DAP/reference	0.78521	0.014
41DAP/reference	0.83432	0.038
42DAP/reference	0.76678	0.01
43DAP/reference	0.72636	0.011
47DAP/reference	0.99407	0.671
52DAP/reference	0.89306	0.049
57DAP/reference	0.89375	0.026

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.49427	0.116
17DAP/reference	2.07252	0.009
27DAP/reference	1.59317	0.03
39DAP/reference	1.47908	0.016
41DAP/reference	1.67851	0.012
42DAP/reference	1.42338	0.096
43DAP/reference	1.54914	0.077
47DAP/reference	1.29923	0.022
52DAP/reference	1.32114	0.009
57DAP/reference	1.35326	0.029

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83368	0.061
17DAP/reference	0.99654	0.751
27DAP/reference	0.80847	0.041
39DAP/reference	0.83627	0.046
41DAP/reference	0.9494	0.331
42DAP/reference	1.20049	0.943
43DAP/reference	1.11778	0.867
47DAP/reference	1.23874	0.519
52DAP/reference	0.87061	0.351
57DAP/reference	1.1477	0.144

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.89146	0.997
26DAP/20DAP	1.05825	0.727
34DAP/26DAP	0.98576	0.988
51DAP/34DAP	0.94046	0.449
52DAP/51DAP	1.00554	0.925
53DAP/52DAP	1.2493
55DAP/53DAP	0.91996
57DAP/55DAP	0.98577	0.909
62DAP/57DAP	0.90068	0.681
68DAP/62DAP	0.74462	0.211
68DAP/14DAP	0.96047	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.19169	0.113

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.8094	0.261
Mature Green Tomato/Ripe Tomato	1.34691	0.106
Immature Eggplant/Mature Eggplant	0.9546	0.651
Ripe Pepper/Ripe Tomato	0.91877	1
Mature Eggplant/Ripe Tomato	0.74987	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.07843	0.877
1-1-2/M82	1.1592	0.977
12-2/M82	1.06012	1
12-4/M82	1.03731	1
1-3/M82	N/A	N/A
2-1-1/M82	1.13364
2-1/M82	0.78561
2-6/M82	0.9953
3-2/M82	1.02933	1
4-1-1/M82	0.99092	1
4-1/M82	1.07994	1
4-3-2/M82	0.79905	0.698
4-3/M82	1.02592	0.268
5-3/M82	1.12681	1
6-2/M82	0.98616	1
6-3/M82	1.00929	1
7-1/M82	1.07857	1
7-2/M82	1.08131	1
9-3-2/M82	1.07269	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.87365	0.321
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.85423	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.84541	0.699
WT/WTpooled	N/A	N/A

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	1.17951	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99781	1
DC3000/delta hrp 6h	1.01081	0.95
DC3000/delta hrp 12h	1.26238	1
DC3000/delta hrp 24h	0.84684	0.148

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.26411	0.042
DC3000 delta B/DC3000 delta AB	1.2915	0.092

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.97212	1
Exp 36h	1.07133	1
Exp 60h	1.14392	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.92196	1
Var 0h	0.49213	0.457
Var 12h I row2-row1	1.01013	0.795
Var 12h NI row2-row1	1.13733	0.649
Var 36h I row2-row1	1.12912	0.41
Var 36h NI row2-row1	0.85915	0.469
Var 60h I row2-row1	0.91469	0.582
Var 60h NI row2-row1	0.93536	0.69
Time course 0hI-0hNI	1.04475	0.537
Time course 12hI-12hNI	1.05691	0.567
Time course 36hI-36hNI	1.32382	0.006
Time course 60hI-60hNI	1.96129	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)	1.06946	0.431
transgenic ySAMdc/azygous control (breaker)	1.19089	1
transgenic ySAMdc/azygous control (red)	1.17789	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.93065	0.237

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.87344	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.0495	1
Manapal/WT (break)	0.79177	1
Manapal/WT (red)	1.94223	0.222