Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.13.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98113	0.83
27DAP/17DAP	0.99129	1
39DAP/27DAP	0.89152	0.631
41DAP/39DAP	1.05502	0.696
42DAP/41DAP	0.92456	1
43DAP/42DAP	1.06047	0.991
47DAP/43DAP	0.94354	0.788
52DAP/47DAP	1.21087	0.608
57DAP/52DAP	1.10506	0.853

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92913	0.177
17DAP/reference	1.04563	0.457
27DAP/reference	0.98343	0.471
39DAP/reference	1.04085	0.209
41DAP/reference	0.94153	0.039
42DAP/reference	0.93514	0.043
43DAP/reference	1.04257	0.445
47DAP/reference	0.94087	0.098
52DAP/reference	0.90303	0.158
57DAP/reference	1.0557	0.447

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03094	0.675
27DAP/17DAP	1.05858	0.798
39DAP/27DAP	1.04242	0.56
41DAP/39DAP	1.04819	0.663
42DAP/41DAP	0.99583	0.899
43DAP/42DAP	0.99781	1
47DAP/43DAP	0.96936	0.764
52DAP/47DAP	0.9978	0.975
57DAP/52DAP	1.05317	0.659
57DAP/7DAP	0.96762	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92003	0.1
17DAP/reference	0.87634	0.108
27DAP/reference	0.83991	0.019
39DAP/reference	1.18744	0.044
41DAP/reference	0.91668	0.05
42DAP/reference	0.99039	0.582
43DAP/reference	1.00908	1
47DAP/reference	1.05642	0.932
52DAP/reference	1.00919	1
57DAP/reference	0.94848	0.291

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01789	0.732
17DAP/reference	1.07704	0.415
27DAP/reference	0.93379	0.292
39DAP/reference	0.90426	0.099
41DAP/reference	0.91814	0.07
42DAP/reference	0.9918	0.594
43DAP/reference	0.91887	0.328
47DAP/reference	1.06071	0.343
52DAP/reference	0.95584	0.156
57DAP/reference	1.02545	0.654

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82828	0.048
17DAP/reference	0.89227	0.243
27DAP/reference	0.89712	0.089
39DAP/reference	0.92215	0.271
41DAP/reference	0.95605	0.512
42DAP/reference	0.80515	0.059
43DAP/reference	0.85773	0.041
47DAP/reference	0.90842	0.145
52DAP/reference	0.97009	0.663
57DAP/reference	0.97732	0.491

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.15556	0.966
26DAP/20DAP	0.99947	1
34DAP/26DAP	1.06656	0.819
51DAP/34DAP	0.94066	0.546
52DAP/51DAP	0.98482	1
53DAP/52DAP	1.07649	0.47
55DAP/53DAP	1.08536	0.79
57DAP/55DAP	0.89534	0.606
62DAP/57DAP	1.09925	0.723
68DAP/62DAP	1.13301	0.557
68DAP/14DAP	0.90389	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.00551	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.98303	0.826
Mature Green Tomato/Ripe Tomato	0.92645	0.522
Immature Eggplant/Mature Eggplant	2.03635	0.05
Ripe Pepper/Ripe Tomato	0.3691	0.293
Mature Eggplant/Ripe Tomato	0.57719	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96908	0.961
1-1-2/M82	1.00159	1
12-2/M82	0.89575	0.955
12-4/M82	0.99882	1
1-3/M82	0.94316	0.441
2-1-1/M82	0.95258	0.92
2-1/M82	1.19054	1
2-6/M82	0.96421	1
3-2/M82	0.98301	1
4-1-1/M82	0.95872	1
4-1/M82	0.86893	1
4-3-2/M82	0.90596	1
4-3/M82	0.96493	1
5-3/M82	0.99614	1
6-2/M82	1.04027	1
6-3/M82	1.0071	1
7-1/M82	1.03416	0.598
7-2/M82	0.97391	1
9-3-2/M82	0.88419	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.9524	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.80687	0.298
IL12-4/WTpooled	0.89608	0.566
IL1-4/WTpooled	0.9823
WT/WTpooled	0.89178	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	1.89083	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95355	1
DC3000/delta hrp 6h	1.08293	0.95
DC3000/delta hrp 12h	1.00424	1
DC3000/delta hrp 24h	1.0083	0.821

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.17224	0.081
DC3000 delta B/DC3000 delta AB	1.10844	0.335

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01149	1
Exp 36h	1.32388	0.489
Exp 60h	1.26589	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00983	1
Var 0h	0.99228	1
Var 12h I row2-row1	1.90326	0.348
Var 12h NI row2-row1	0.97939	0.82
Var 36h I row2-row1	0.72913	0.805
Var 36h NI row2-row1	0.86442	0.61
Var 60h I row2-row1	0.90023	0.292
Var 60h NI row2-row1	1.13014	0.904
Time course 0hI-0hNI	1.03612	0.603
Time course 12hI-12hNI	1.13739	0.178
Time course 36hI-36hNI	1.11389	0.248
Time course 60hI-60hNI	1.39925	0.015

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)	1.77724	0.397
transgenic ySAMdc/azygous control (breaker)	0.65403	0.131
transgenic ySAMdc/azygous control (red)	1.34099	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00073	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.64403	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.67806	1
Manapal/WT (break)	0.51057	0.333
Manapal/WT (red)	0.54508	0.229