Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.19.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11037	0.878
27DAP/17DAP	1.01858	1
39DAP/27DAP	1.26325	0.361
41DAP/39DAP	0.762	0.193
42DAP/41DAP	1.11203	0.983
43DAP/42DAP	1.01395	0.937
47DAP/43DAP	0.74185	0.263
52DAP/47DAP	0.94311	0.779
57DAP/52DAP	1.10504	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99954	0.806
17DAP/reference	1.05768	0.957
27DAP/reference	1.30799	0.415
39DAP/reference	1.19592	0.514
41DAP/reference	1.05676	0.714
42DAP/reference	1.19644	0.656
43DAP/reference	1.10849
47DAP/reference	1.06761	0.685
52DAP/reference	1.64296	0.036
57DAP/reference	0.60326

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03873	0.87
27DAP/17DAP	1.0453	0.957
39DAP/27DAP	1.38479	0.151
41DAP/39DAP	0.98108	0.968
42DAP/41DAP	0.9791	0.772
43DAP/42DAP	1.46533	0.022
47DAP/43DAP	1.04255	0.837
52DAP/47DAP	1.12703	0.734
57DAP/52DAP	1.57849	0.039
57DAP/7DAP	1.76541	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77588	0.146
17DAP/reference	0.89193	0.094
27DAP/reference	1.06163	1
39DAP/reference	1.04063	0.669
41DAP/reference	1.00413	0.709
42DAP/reference	1.01612	0.791
43DAP/reference	1.02626	0.764
47DAP/reference	0.84847	0.293
52DAP/reference	1.00791	0.802
57DAP/reference	0.92449	0.207

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86371	0.296
17DAP/reference	1.06089	0.999
27DAP/reference	1.01623	0.686
39DAP/reference	1.039	0.661
41DAP/reference	0.91843	0.237
42DAP/reference	1.27337	0.153
43DAP/reference	1.15667	0.582
47DAP/reference	1.09567	0.413
52DAP/reference	1.13983	0.789
57DAP/reference	0.99838	0.68

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76533	0.038
17DAP/reference	0.84614	0.348
27DAP/reference	0.96642	0.516
39DAP/reference	0.93677	0.328
41DAP/reference	0.98954	0.682
42DAP/reference	1.48485	0.692
43DAP/reference	0.86674	0.256
47DAP/reference	1.01535	0.754
52DAP/reference	0.81819	0.289
57DAP/reference	1.18661	0.452

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.36675
26DAP/20DAP	1.23124	0.246
34DAP/26DAP	1.01789	1
51DAP/34DAP	1.11079	0.759
52DAP/51DAP	1.03786	0.848
53DAP/52DAP	0.94314	0.715
55DAP/53DAP	0.83673	0.053
57DAP/55DAP	1.39045	0.448
62DAP/57DAP	0.9946	0.994
68DAP/62DAP	1.11005
68DAP/14DAP	1.07338	0.889

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.00907	0.016

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.22972	0.632
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

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	1.24056	1
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	0.97917
4-1-1/M82	N/A	N/A
4-1/M82	1.34445
4-3-2/M82	0.99422	1
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	1.00984	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.81352	1
IL2-6/WTpooled	0.77886	1
IL7-5/WTpooled	0.81082	1
IL7-3/WTpooled	1.04536	1
IL12-4/WTpooled	1.24503	0.839
IL1-4/WTpooled	0.84165	0.415
WT/WTpooled	1.03984	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	1.23145	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.897	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.6767	1
DC3000/delta hrp 24h	0.67864	0.038

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.65266	0.042
DC3000 delta B/DC3000 delta AB	1.29178	0.173

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02027	1
Var 0h	0.7432	0.457
Var 12h I row2-row1	0.92687	0.418
Var 12h NI row2-row1	1.13422	0.649
Var 36h I row2-row1	1.18811	0.742
Var 36h NI row2-row1	0.83984	0.478
Var 60h I row2-row1	0.82419	0.582
Var 60h NI row2-row1	0.81728	0.431
Time course 0hI-0hNI	1.08534	0.537
Time course 12hI-12hNI	1.03638	0.746
Time course 36hI-36hNI	1.64024	0.005
Time course 60hI-60hNI	2.40877	0.009

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	0.94601	1
transgenic ySAMdc/azygous control (red)	0.93401	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.07114	0.395

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.30212	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.91622	1
Manapal/WT (red)	4.85476	0.108