Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.14.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14862	0.575
27DAP/17DAP	1.12734	0.849
39DAP/27DAP	1.12786	0.787
41DAP/39DAP	0.92014	0.65
42DAP/41DAP	1.10742	0.912
43DAP/42DAP	0.99134	0.937
47DAP/43DAP	1.23122	0.715
52DAP/47DAP	0.99933	0.851
57DAP/52DAP	0.98507	0.976

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19652	0.162
17DAP/reference	1.08554	0.117
27DAP/reference	1.13133	0.415
39DAP/reference	1.01153	0.734
41DAP/reference	1.32435	0.015
42DAP/reference	1.11019	0.003
43DAP/reference	1.01806	0.838
47DAP/reference	1.01843	1
52DAP/reference	1.0466	0.548
57DAP/reference	0.9138	0.039

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98683	0.763
27DAP/17DAP	1.02235	0.942
39DAP/27DAP	1.01043	0.832
41DAP/39DAP	1.00105	1
42DAP/41DAP	1.05938	0.301
43DAP/42DAP	1.02141	0.446
47DAP/43DAP	1.01582	0.892
52DAP/47DAP	0.98539	0.907
57DAP/52DAP	0.92818	0.384
57DAP/7DAP	0.98725	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96807	0.402
17DAP/reference	0.96783	0.22
27DAP/reference	1.00437	1
39DAP/reference	0.98841	0.552
41DAP/reference	0.93857	0.203
42DAP/reference	1.03256	0.686
43DAP/reference	0.98301	0.351
47DAP/reference	0.95525	0.222
52DAP/reference	1.01183	0.832
57DAP/reference	1.0029	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14061	0.079
17DAP/reference	1.18766	0.023
27DAP/reference	1.08293	0.427
39DAP/reference	1.12114	0.2
41DAP/reference	1.08609	0.642
42DAP/reference	0.95278	0.321
43DAP/reference	1.21264	0.268
47DAP/reference	0.98789	0.59
52DAP/reference	1.1594	0.043
57DAP/reference	1.33886	0.037

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98426	0.526
17DAP/reference	0.99649	0.839
27DAP/reference	0.96823	0.206
39DAP/reference	0.99964	0.889
41DAP/reference	1.01613	0.889
42DAP/reference	0.95782	0.445
43DAP/reference	1.01605	0.827
47DAP/reference	0.92229	0.278
52DAP/reference	0.89648	0.211
57DAP/reference	0.74543	0.025

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.90437	1
26DAP/20DAP	1.00259	1
34DAP/26DAP	1.04653	0.819
51DAP/34DAP	0.98248	0.835
52DAP/51DAP	0.98417	1
53DAP/52DAP	0.95703	0.772
55DAP/53DAP	1.02576	0.885
57DAP/55DAP	1.00891	0.968
62DAP/57DAP	1.14628	0.678
68DAP/62DAP	0.76779	0.263
68DAP/14DAP	0.75915	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.07437	0.039

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.5834	0.287
Mature Green Tomato/Ripe Tomato	1.20544	0.363
Immature Eggplant/Mature Eggplant	0.15497	0.057
Ripe Pepper/Ripe Tomato	3.06245
Mature Eggplant/Ripe Tomato	5.6458	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.06064	1
1-1-2/M82	1.18811	1
12-2/M82	N/A	N/A
12-4/M82	1.19887	1
1-3/M82	0.60463
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.1449	0.594
3-2/M82	0.97318
4-1-1/M82	N/A	N/A
4-1/M82	1.14566	0.853
4-3-2/M82	0.94711	1
4-3/M82	N/A	N/A
5-3/M82	0.95978	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.10263
7-2/M82	0.97406
9-3-2/M82	0.73171	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.93224
IL2-6/WTpooled	0.88384	0.473
IL7-5/WTpooled	0.63879	1
IL7-3/WTpooled	1.28424	1
IL12-4/WTpooled	1.1582	0.503
IL1-4/WTpooled	1.00707	1
WT/WTpooled	0.96963	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	1.51689	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01954	0.921
DC3000/delta hrp 6h	1.41005	1
DC3000/delta hrp 12h	1.03956	1
DC3000/delta hrp 24h	0.95284	0.7

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.06403	0.055
DC3000 delta B/DC3000 delta AB	1.02766	0.601

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.89183	1
Exp 36h	1.20124	1
Exp 60h	1.0312	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96792	1
Var 0h	1.11362	0.782
Var 12h I row2-row1	1.15254	0.216
Var 12h NI row2-row1	1.03106	1
Var 36h I row2-row1	0.97151	1
Var 36h NI row2-row1	1.02763	1
Var 60h I row2-row1	1.1314	1
Var 60h NI row2-row1	0.94064	0.756
Time course 0hI-0hNI	1.05633	0.833
Time course 12hI-12hNI	1.04276	0.668
Time course 36hI-36hNI	1.07082	0.063
Time course 60hI-60hNI	1.23079	0.053

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)	0.57766	0.314
transgenic ySAMdc/azygous control (breaker)	0.76332	0.173
transgenic ySAMdc/azygous control (red)	0.89392	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.93257	0.049

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.98804	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.11677	1
Manapal/WT (break)	1.07069	1
Manapal/WT (red)	0.69442	0.229