Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.17.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84484	0.373
27DAP/17DAP	1.33512	0.788
39DAP/27DAP	1.70634	0.361
41DAP/39DAP	0.81173	0.37
42DAP/41DAP	0.93547	1
43DAP/42DAP	1.00522	0.937
47DAP/43DAP	0.7758	0.345
52DAP/47DAP	1.49433	0.556
57DAP/52DAP	1.04805	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18026	0.057
17DAP/reference	0.94071	0.393
27DAP/reference	0.86314	0.061
39DAP/reference	0.85438	0.032
41DAP/reference	0.75566	0.008
42DAP/reference	0.99327	0.501
43DAP/reference	0.87827	0.098
47DAP/reference	0.95643	0.3
52DAP/reference	0.97148	0.489
57DAP/reference	1.17209	0.173

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92025	0.484
27DAP/17DAP	1.11489	0.771
39DAP/27DAP	0.52394	0.035
41DAP/39DAP	1.35314	0.565
42DAP/41DAP	0.90409	0.443
43DAP/42DAP	0.78756	0.105
47DAP/43DAP	0.92792	0.476
52DAP/47DAP	0.93864	0.807
57DAP/52DAP	1.29536	0.301
57DAP/7DAP	0.64177	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01129	0.613
17DAP/reference	0.9962	0.599
27DAP/reference	0.64825	0.019
39DAP/reference	0.99886	0.64
41DAP/reference	1.16831	0.251
42DAP/reference	1.08895	1
43DAP/reference	0.97203	0.48
47DAP/reference	1.35342	0.037
52DAP/reference	0.98161	0.621
57DAP/reference	1.26579	0.268

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00079	0.848
17DAP/reference	1.25114	0.203
27DAP/reference	1.14952	0.471
39DAP/reference	1.11314	0.155
41DAP/reference	1.2616	0.02
42DAP/reference	1.22984	0.043
43DAP/reference	0.87723	0.229
47DAP/reference	1.34885	0.008
52DAP/reference	1.04042	0.471
57DAP/reference	0.85984	0.135

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97118	0.526
17DAP/reference	1.01712	0.944
27DAP/reference	1.41771	0.1
39DAP/reference	1.17087	0.633
41DAP/reference	1.12059	0.57
42DAP/reference	0.92247	0.445
43DAP/reference	1.10333	0.744
47DAP/reference	0.79784	0.019
52DAP/reference	0.87051	0.119
57DAP/reference	1.14887	0.209

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01949	0.966
26DAP/20DAP	1.65624	0.106
34DAP/26DAP	0.75105	0.286
51DAP/34DAP	0.93752	0.674
52DAP/51DAP	0.99663	1
53DAP/52DAP	0.97527	0.848
55DAP/53DAP	0.78567	0.052
57DAP/55DAP	1.31385	0.448
62DAP/57DAP	1.08732	0.868
68DAP/62DAP	1.89493	0.022
68DAP/14DAP	1.7031	0.091

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.2825	0.025

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.6263	0.058
Mature Green Tomato/Ripe Tomato	1.15383
Immature Eggplant/Mature Eggplant	1.23837	0.507
Ripe Pepper/Ripe Tomato	0.69099	0.293
Mature Eggplant/Ripe Tomato	2.31947	0.268

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.77482
1-1-2/M82	0.99778	1
12-2/M82	1.57588
12-4/M82	0.89857	0.619
1-3/M82	0.80194
2-1-1/M82	0.6703
2-1/M82	N/A	N/A
2-6/M82	1.01355
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	0.87233	1
5-3/M82	1.06244	1
6-2/M82	1.03588
6-3/M82	1.27039
7-1/M82	1.40125
7-2/M82	3.02005	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.93555	1
IL2-6/WTpooled	0.88272	1
IL7-5/WTpooled	0.65436
IL7-3/WTpooled	0.77957	0.418
IL12-4/WTpooled	1.31925	0.891
IL1-4/WTpooled	0.86591	0.699
WT/WTpooled	1.03409	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	1.11126	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99605	1
DC3000/delta hrp 6h	1.06541	0.95
DC3000/delta hrp 12h	0.97705	1
DC3000/delta hrp 24h	0.789	0.055

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.79134	0.047
DC3000 delta B/DC3000 delta AB	0.8047	0.03

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06151	1
Exp 36h	1.37264	0.489
Exp 60h	1.4494	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02657	1
Var 0h	1.04503	1
Var 12h I row2-row1	0.9754	0.948
Var 12h NI row2-row1	0.99913	1
Var 36h I row2-row1	1.33292	0.742
Var 36h NI row2-row1	1.23842	1
Var 60h I row2-row1	0.69181	0.287
Var 60h NI row2-row1	0.94081	1
Time course 0hI-0hNI	1.10912	0.799
Time course 12hI-12hNI	1.13386	0.072
Time course 36hI-36hNI	1.13056	0.017
Time course 60hI-60hNI	1.11023	0.069

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)	0.90929	0.409
transgenic ySAMdc/azygous control (breaker)	0.33032	0.131
transgenic ySAMdc/azygous control (red)	1.19235	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.56267	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.09736	1
Manapal/WT (break)	1.12711	1
Manapal/WT (red)	0.78006	0.424