Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.18.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.60474	0.031
27DAP/17DAP	1.0657	0.973
39DAP/27DAP	1.59514	0.28
41DAP/39DAP	0.93508	0.694
42DAP/41DAP	0.75885	0.774
43DAP/42DAP	0.75798	0.665
47DAP/43DAP	0.78348	0.35
52DAP/47DAP	1.73533	0.256
57DAP/52DAP	0.85537	0.844

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14334	0.218
17DAP/reference	1.10159	0.318
27DAP/reference	1.06629	0.375
39DAP/reference	0.98353	0.828
41DAP/reference	1.01334	0.963
42DAP/reference	0.98498	0.398
43DAP/reference	0.99347	0.861
47DAP/reference	0.91631	0.09
52DAP/reference	0.9743	0.504
57DAP/reference	0.93247	0.21

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96463	0.679
27DAP/17DAP	0.96207	0.878
39DAP/27DAP	0.95868	0.747
41DAP/39DAP	1.55992	0.026
42DAP/41DAP	0.88492	0.326
43DAP/42DAP	0.77023	0.065
47DAP/43DAP	0.94202	0.781
52DAP/47DAP	1.18978	0.73
57DAP/52DAP	1.04114	1
57DAP/7DAP	N/A	N/A

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15643	0.097
17DAP/reference	1.20796	0.007
27DAP/reference	1.11096	0.16
39DAP/reference	1.56854	0.006
41DAP/reference	1.38675	0.05
42DAP/reference	1.77005	0.007
43DAP/reference	1.41195	0.066
47DAP/reference	1.25856	0.145
52DAP/reference	1.45861	0.018
57DAP/reference	1.30215	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84941	0.204
17DAP/reference	1.12522	0.628
27DAP/reference	1.09603	0.745
39DAP/reference	1.3952	0.132
41DAP/reference	1.18714	0.209
42DAP/reference	1.14454	0.281
43DAP/reference	0.9365	0.385
47DAP/reference	1.23621	0.19
52DAP/reference	1.09032	0.393
57DAP/reference	1.66259	0.398

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94883	0.362
17DAP/reference	0.96367	0.537
27DAP/reference	1.16826	0.051
39DAP/reference	1.01199	1
41DAP/reference	1.20041	0.108
42DAP/reference	1.23105	0.347
43DAP/reference	1.04602	0.84
47DAP/reference	0.96741	0.465
52DAP/reference	0.97509	0.763
57DAP/reference	1.25109	0.071

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.62367
26DAP/20DAP	0.96086	1
34DAP/26DAP	0.97802	1
51DAP/34DAP	1.36279	0.854
52DAP/51DAP	0.98984	1
53DAP/52DAP	0.77292	0.455
55DAP/53DAP	0.80223	0.735
57DAP/55DAP	0.58299	0.019
62DAP/57DAP	1.26477	0.902
68DAP/62DAP	1.34913	0.31
68DAP/14DAP	1.46695	0.038

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.16356	0.865

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.24493	0.062
Mature Green Tomato/Ripe Tomato	1.09519	1
Immature Eggplant/Mature Eggplant	2.46621	0.05
Ripe Pepper/Ripe Tomato	3.96027	1
Mature Eggplant/Ripe Tomato	1.9148	0.268

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	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
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	0.9327	1
IL2-6/WTpooled	0.87167	1
IL7-5/WTpooled	0.78559	1
IL7-3/WTpooled	1.11275	0.362
IL12-4/WTpooled	1.13629	0.695
IL1-4/WTpooled	0.97197	1
WT/WTpooled	1.13024	0.789

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	1.17883	0.193

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05969	0.715
DC3000/delta hrp 6h	1.10626	1
DC3000/delta hrp 12h	0.86467	1
DC3000/delta hrp 24h	4.68978	0.028

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.39098	0.042
DC3000 delta B/DC3000 delta AB	1.2488	0.177

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.20787	1
Exp 36h	1.03146	1
Exp 60h	1.10627	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0641	1
Var 0h	0.97502	1
Var 12h I row2-row1	1.2028	0.348
Var 12h NI row2-row1	1.12828	1
Var 36h I row2-row1	0.8326	1
Var 36h NI row2-row1	1.01955	1
Var 60h I row2-row1	0.79663	0.306
Var 60h NI row2-row1	0.766	0.301
Time course 0hI-0hNI	1.0904	0.486
Time course 12hI-12hNI	1.14212	0.213
Time course 36hI-36hNI	1.37695	0.009
Time course 60hI-60hNI	2.27437	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)	0.84651	0.314
transgenic ySAMdc/azygous control (breaker)	0.81988	0.173
transgenic ySAMdc/azygous control (red)	1.24747	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97723	0.5

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.88857	0.255

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.88012	1
Manapal/WT (break)	0.87648	1
Manapal/WT (red)	0.96034	0.863