Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.18.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00544	0.823
27DAP/17DAP	0.96037	0.978
39DAP/27DAP	1.41321	0.195
41DAP/39DAP	1.07605	0.964
42DAP/41DAP	1.24979	0.852
43DAP/42DAP	1.29744	0.662
47DAP/43DAP	1.16835	0.856
52DAP/47DAP	1.44099	0.639
57DAP/52DAP	1.13358	0.962

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.72096	0.033
17DAP/reference	0.75557	0.046
27DAP/reference	0.87917	0.265
39DAP/reference	0.8066	0.155
41DAP/reference	0.68251	0.026
42DAP/reference	0.97938	0.372
43DAP/reference	1.08948	0.306
47DAP/reference	1.1191	0.329
52DAP/reference	0.95636	0.438
57DAP/reference	1.23481	0.202

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.9037	0.241
27DAP/17DAP	1.23874	0.686
39DAP/27DAP	0.82729	0.311
41DAP/39DAP	1.14201	0.861
42DAP/41DAP	1.05048	1
43DAP/42DAP	1.52894	0.23
47DAP/43DAP	1.22633	0.857
52DAP/47DAP	1.38228	0.315
57DAP/52DAP	1.39353	0.643
57DAP/7DAP	2.16319	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99451	0.682
17DAP/reference	0.92166	0.253
27DAP/reference	0.87155	0.024
39DAP/reference	0.90737	0.198
41DAP/reference	0.92329	0.223
42DAP/reference	0.86024	0.073
43DAP/reference	1.01295	0.923
47DAP/reference	0.85814	0.293
52DAP/reference	0.80083	0.026
57DAP/reference	0.99008	0.589

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83071	0.17
17DAP/reference	0.68177	0.005
27DAP/reference	0.80242	0.071
39DAP/reference	0.7715	0.058
41DAP/reference	0.74915	0.058
42DAP/reference	0.8775	0.108
43DAP/reference	0.77979	0.043
47DAP/reference	0.78239	0.03
52DAP/reference	0.7472	0.027
57DAP/reference	0.80644	0.085

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92323	0.311
17DAP/reference	0.90867	0.364
27DAP/reference	0.67881	0.113
39DAP/reference	0.71415	0.019
41DAP/reference	0.98725	0.56
42DAP/reference	0.95299	0.552
43DAP/reference	1.21634	0.308
47DAP/reference	1.08791	0.82
52DAP/reference	1.23675	0.801
57DAP/reference	1.0847	0.419

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.3003	0.966
26DAP/20DAP	0.92804	1
34DAP/26DAP	1.39848	1
51DAP/34DAP	2.29412	0.029
52DAP/51DAP	0.95034	1
53DAP/52DAP	2.27829	0.023
55DAP/53DAP	1.03446	0.989
57DAP/55DAP	0.87747	0.415
62DAP/57DAP	0.97524	0.994
68DAP/62DAP	1.14509	0.792
68DAP/14DAP	1.55229	0.027

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.36183	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.2326	0.058
Mature Green Tomato/Ripe Tomato	0.16818	0.033
Immature Eggplant/Mature Eggplant	0.38048
Ripe Pepper/Ripe Tomato	0.43723	0.293
Mature Eggplant/Ripe Tomato	0.25185	0.234

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	N/A	N/A
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	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	N/A	N/A
5-3/M82	0.99327
6-2/M82	N/A	N/A
6-3/M82	0.64532	0.916
7-1/M82	N/A	N/A
7-2/M82	1.68643
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.96239	1
IL2-6/WTpooled	1.06048	0.531
IL7-5/WTpooled	1.09822	0.792
IL7-3/WTpooled	1.11207	1
IL12-4/WTpooled	1.01688	1
IL1-4/WTpooled	1.16453	1
WT/WTpooled	1.05313	0.957

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	1.21044	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95954	1
DC3000/delta hrp 6h	1.05105	1
DC3000/delta hrp 12h	0.93048	1
DC3000/delta hrp 24h	1.10514	0.567

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.54687
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.099	1
Exp 36h	0.69755	0.434
Exp 60h	0.69036	0.32

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

hybridization	ratio	FDR (corrected p value)
self-self	1.08911	1
Var 0h	1.01012	1
Var 12h I row2-row1	1.03917	0.692
Var 12h NI row2-row1	1.17037	1
Var 36h I row2-row1	0.81534	0.805
Var 36h NI row2-row1	0.86337	0.645
Var 60h I row2-row1	0.99136	1
Var 60h NI row2-row1	0.75038	0.431
Time course 0hI-0hNI	1.06553	0.799
Time course 12hI-12hNI	1.36479	0.006
Time course 36hI-36hNI	1.37907	0.089
Time course 60hI-60hNI	2.16263	0.047

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)	0.94623	0.567
transgenic ySAMdc/azygous control (breaker)	0.83264	0.251
transgenic ySAMdc/azygous control (red)	0.89274	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.82481	0.149

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.24421	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	5.18079	0.084
Manapal/WT (break)	1.21258	0.123
Manapal/WT (red)	0.42281	0.181