Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.11.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90608	0.551
27DAP/17DAP	1.18872	0.859
39DAP/27DAP	0.85528	0.443
41DAP/39DAP	1.56269	0.255
42DAP/41DAP	1.14154	0.954
43DAP/42DAP	0.90696	0.801
47DAP/43DAP	1.03456	0.776
52DAP/47DAP	1.36318	0.421
57DAP/52DAP	0.80548	0.431

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92445	0.07
17DAP/reference	1.00698	0.696
27DAP/reference	0.9598	0.208
39DAP/reference	0.98884	0.841
41DAP/reference	0.98245	0.667
42DAP/reference	0.90337	0.017
43DAP/reference	1.01743	0.617
47DAP/reference	0.909	0.021
52DAP/reference	0.92078	0.405
57DAP/reference	0.87308	0.045

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91121	0.27
27DAP/17DAP	0.9582	0.821
39DAP/27DAP	1.01729	0.854
41DAP/39DAP	0.98322	0.986
42DAP/41DAP	1.11312	0.495
43DAP/42DAP	0.9999	1
47DAP/43DAP	1.07618	0.744
52DAP/47DAP	1.01147	1
57DAP/52DAP	1.06079	0.598
57DAP/7DAP	1.14443	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86754	0.078
17DAP/reference	0.88481	0.014
27DAP/reference	0.84818	0.01
39DAP/reference	0.88642	0.011
41DAP/reference	0.8828	0.098
42DAP/reference	0.91686	0.046
43DAP/reference	0.83221	0.011
47DAP/reference	0.84671	0.168
52DAP/reference	0.86558	0.033
57DAP/reference	0.83962	0.014

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02968	0.687
17DAP/reference	1.01498	0.874
27DAP/reference	0.94673	0.393
39DAP/reference	0.86685	0.064
41DAP/reference	0.83559	0.047
42DAP/reference	0.87785	0.081
43DAP/reference	1.00898	1
47DAP/reference	0.9914	0.609
52DAP/reference	0.97034	0.38
57DAP/reference	1.02492	0.874

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89978	0.035
17DAP/reference	0.96916	0.488
27DAP/reference	0.86079	0.038
39DAP/reference	0.85727	0.017
41DAP/reference	0.905	0.028
42DAP/reference	0.82264	0.019
43DAP/reference	0.83181	0.054
47DAP/reference	0.93017	0.286
52DAP/reference	0.81448	0.1
57DAP/reference	0.69754	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06467	0.966
26DAP/20DAP	0.93017	1
34DAP/26DAP	1.13403	0.819
51DAP/34DAP	0.99667	0.957
52DAP/51DAP	1.10186	0.396
53DAP/52DAP	1.05537	0.565
55DAP/53DAP	1.02282	0.955
57DAP/55DAP	0.84469	0.386
62DAP/57DAP	1.03992	0.833
68DAP/62DAP	1.05092	1
68DAP/14DAP	0.9733	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.86637	0.322

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.33279	0.093
Mature Green Tomato/Ripe Tomato	1.11196	0.881
Immature Eggplant/Mature Eggplant	1.16839	0.088
Ripe Pepper/Ripe Tomato	1.1259	1
Mature Eggplant/Ripe Tomato	0.95224	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.93675	0.944
1-1-2/M82	0.93845	1
12-2/M82	1.17793
12-4/M82	1.03551	1
1-3/M82	0.96544	1
2-1-1/M82	0.94994
2-1/M82	1.06331
2-6/M82	0.98993	1
3-2/M82	0.9366	1
4-1-1/M82	0.95051	1
4-1/M82	1.05093	1
4-3-2/M82	0.67722	0.487
4-3/M82	0.81215	0.72
5-3/M82	1.03504	1
6-2/M82	0.87459
6-3/M82	0.98078	1
7-1/M82	0.89224	1
7-2/M82	0.96997	0.578
9-3-2/M82	0.75212	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.54683
IL2-6/WTpooled	0.72514	0.383
IL7-5/WTpooled	1.16536	0.792
IL7-3/WTpooled	1.24169	1
IL12-4/WTpooled	1.18587	0.546
IL1-4/WTpooled	0.84579	0.457
WT/WTpooled	0.97213	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	1.21482	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03712	0.715
DC3000/delta hrp 6h	1.0431	0.95
DC3000/delta hrp 12h	1.22506	1
DC3000/delta hrp 24h	0.98886	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1	1
DC3000 delta B/DC3000 delta AB	1.05351	0.472

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.87652	1
Exp 36h	1.1171	1
Exp 60h	1.32715	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98223	1
Var 0h	0.93208	1
Var 12h I row2-row1	1.11071	0.198
Var 12h NI row2-row1	1.00796	1
Var 36h I row2-row1	1.09779	1
Var 36h NI row2-row1	0.99873	1
Var 60h I row2-row1	1.19016	1
Var 60h NI row2-row1	1.17375	0.904
Time course 0hI-0hNI	1.09755	0.719
Time course 12hI-12hNI	1.04277	0.734
Time course 36hI-36hNI	1.00066	0.89
Time course 60hI-60hNI	1.3088	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)	0.87967	0.246
transgenic ySAMdc/azygous control (breaker)	1.07839	0.178
transgenic ySAMdc/azygous control (red)	1.02485	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04773	0.08

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.16154	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.84867	1
Manapal/WT (break)	0.84876	0.333
Manapal/WT (red)	0.9398	0.36