Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.7.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03985	0.997
27DAP/17DAP	1.26301	0.809
39DAP/27DAP	1.25821	0.655
41DAP/39DAP	1.14607	0.797
42DAP/41DAP	1.07948	0.983
43DAP/42DAP	1.02265	0.937
47DAP/43DAP	1.2958	0.384
52DAP/47DAP	0.85227	0.67
57DAP/52DAP	0.91024	0.923

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09542	0.241
17DAP/reference	1.04846	0.457
27DAP/reference	0.98397	0.694
39DAP/reference	1.11158	0.343
41DAP/reference	1.18161	0.133
42DAP/reference	0.91732	0.081
43DAP/reference	0.94587	0.48
47DAP/reference	1.00079	0.674
52DAP/reference	0.91116	0.167
57DAP/reference	0.96988	0.395

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.28688	0.271
27DAP/17DAP	1.27117	0.311
39DAP/27DAP	0.86684	0.274
41DAP/39DAP	0.97855	1
42DAP/41DAP	0.78406	0.143
43DAP/42DAP	1.37419	0.049
47DAP/43DAP	1.18265	0.765
52DAP/47DAP	1.09939	0.862
57DAP/52DAP	1.12915	0.907
57DAP/7DAP	1.73777	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20102	0.338
17DAP/reference	0.95111	0.338
27DAP/reference	0.83187	0.012
39DAP/reference	0.953	0.411
41DAP/reference	1.03775	0.918
42DAP/reference	0.8561	0.09
43DAP/reference	1.09143	0.511
47DAP/reference	1.18098	0.21
52DAP/reference	0.90873	0.115
57DAP/reference	0.96057	0.367

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00094	0.869
17DAP/reference	1.0225	1
27DAP/reference	1.08315	0.715
39DAP/reference	1.08356	0.366
41DAP/reference	0.95439	0.364
42DAP/reference	0.99976	0.723
43DAP/reference	1.08165	0.641
47DAP/reference	0.99352	0.66
52DAP/reference	0.93974	0.28
57DAP/reference	1.05026	0.314

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02406	0.827
17DAP/reference	1.07082	0.522
27DAP/reference	0.98072	0.657
39DAP/reference	0.99886	0.819
41DAP/reference	1.03692	0.84
42DAP/reference	1.27734	0.364
43DAP/reference	0.96658	0.523
47DAP/reference	0.87394	0.049
52DAP/reference	1.4399	0.158
57DAP/reference	0.85813	0.032

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06274	0.966
26DAP/20DAP	1.14979	0.654
34DAP/26DAP	1.0428	1
51DAP/34DAP	0.78878	0.428
52DAP/51DAP	1.14457	0.842
53DAP/52DAP	1.29622	0.085
55DAP/53DAP	1.13061	0.771
57DAP/55DAP	1.17549	0.037
62DAP/57DAP	0.98898	0.994
68DAP/62DAP	1.03215	1
68DAP/14DAP	1.03466	0.936

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.08096	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.66527	0.223
Mature Green Tomato/Ripe Tomato	0.25608	0.025
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.40538	1
Mature Eggplant/Ripe Tomato	0.80223	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.02178	1
12-2/M82	0.94862	0.955
12-4/M82	0.79601
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.13882	0.402
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	1.1923
5-3/M82	1.33166
6-2/M82	1.22404
6-3/M82	0.99014	1
7-1/M82	1.09569
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.95955	0.321
IL2-6/WTpooled	0.92584	1
IL7-5/WTpooled	1.11169	0.792
IL7-3/WTpooled	1.17325	1
IL12-4/WTpooled	0.9243	0.71
IL1-4/WTpooled	1.19606	1
WT/WTpooled	0.90693	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	1.0001	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07014	0.921
DC3000/delta hrp 6h	1.24375	1
DC3000/delta hrp 12h	1.18904	1
DC3000/delta hrp 24h	0.89317	0.28

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.50219
DC3000 delta B/DC3000 delta AB	0.9453

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.07377	1
Exp 36h	1.20532	0.693
Exp 60h	1.38341	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05982	1
Var 0h	0.90167	0.933
Var 12h I row2-row1	0.80295	0.467
Var 12h NI row2-row1	1.0635	1
Var 36h I row2-row1	0.97823	1
Var 36h NI row2-row1	2.03824	1
Var 60h I row2-row1	1.00579	1
Var 60h NI row2-row1	1.0649	0.904
Time course 0hI-0hNI	1.10449	0.63
Time course 12hI-12hNI	0.86482	0.128
Time course 36hI-36hNI	0.75205	0.026
Time course 60hI-60hNI	1.72508	0.646

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)	1.26689	0.292
transgenic ySAMdc/azygous control (breaker)	0.81487	0.251
transgenic ySAMdc/azygous control (red)	0.96138	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05437	0.17

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.91848	1
Manapal/WT (break)	1.26653	0.381
Manapal/WT (red)	1.00604	1