Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.20.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.49341	0.523
27DAP/17DAP	1.44784	0.57
39DAP/27DAP	1.73674	0.141
41DAP/39DAP	1.12554	0.797
42DAP/41DAP	0.64003	0.397
43DAP/42DAP	1.18715	0.768
47DAP/43DAP	0.66398	0.151
52DAP/47DAP	1.4858	0.545
57DAP/52DAP	1.25569	0.962

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87948	0.167
17DAP/reference	1.01341	0.74
27DAP/reference	0.95987	0.552
39DAP/reference	1.02552	0.871
41DAP/reference	0.9627	0.814
42DAP/reference	1.01663	1
43DAP/reference	0.56396	0.234
47DAP/reference	1.00525	0.72
52DAP/reference	0.89618	0.177
57DAP/reference	0.28007

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.69083	0.057
27DAP/17DAP	0.8294	0.724
39DAP/27DAP	1.45931	0.117
41DAP/39DAP	1.05602	0.914
42DAP/41DAP	0.68081	0.416
43DAP/42DAP	1.05184	1
47DAP/43DAP	1.11224	1
52DAP/47DAP	1.20396	0.776
57DAP/52DAP	N/A	N/A
57DAP/7DAP	0.89138	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00644	1
17DAP/reference	1.06573	0.361
27DAP/reference	0.97448	0.462
39DAP/reference	0.78496	0.027
41DAP/reference	0.88828	0.184
42DAP/reference	0.89624	0.04
43DAP/reference	0.8148	0.047
47DAP/reference	0.87093	0.293
52DAP/reference	1.06896	0.941
57DAP/reference	1.10932	0.232

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90202	0.441
17DAP/reference	0.75799	0.03
27DAP/reference	0.82095	0.074
39DAP/reference	0.92728	0.281
41DAP/reference	0.94981	0.256
42DAP/reference	0.96718	0.433
43DAP/reference	0.93071	0.438
47DAP/reference	0.94875	0.41
52DAP/reference	1.05392	0.471
57DAP/reference	0.90682	0.298

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78179	0.119
17DAP/reference	1.00278	0.855
27DAP/reference	0.91781	0.257
39DAP/reference	0.91683	0.035
41DAP/reference	0.98181	0.618
42DAP/reference	1.04476	0.775
43DAP/reference	1.03413	0.734
47DAP/reference	0.93445	0.306
52DAP/reference	1.02145	0.941
57DAP/reference	1.05748	0.892

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.74442	0.399
26DAP/20DAP	1.57214	0.735
34DAP/26DAP	1.41987	0.819
51DAP/34DAP	0.87598	0.667
52DAP/51DAP	1.24357
53DAP/52DAP	1.03443
55DAP/53DAP	2.17778	0.041
57DAP/55DAP	0.82556	0.351
62DAP/57DAP	0.91037	0.871
68DAP/62DAP	0.996	0.885
68DAP/14DAP	1.24278	0.578

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.52388	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.73599
Mature Green Tomato/Ripe Tomato	0.51577	0.047
Immature Eggplant/Mature Eggplant	2.23647
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	1.0712	1
12-2/M82	N/A	N/A
12-4/M82	1.46975	0.611
1-3/M82	0.61937	0.339
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.28154	0.505
3-2/M82	0.90188	0.752
4-1-1/M82	0.99879	1
4-1/M82	1.32946	0.444
4-3-2/M82	1.61204
4-3/M82	N/A	N/A
5-3/M82	0.96537	1
6-2/M82	0.85476	0.481
6-3/M82	1.0413	1
7-1/M82	1.05366
7-2/M82	0.81192
9-3-2/M82	1.89583	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.86218
IL2-6/WTpooled	0.68071
IL7-5/WTpooled	0.77253	1
IL7-3/WTpooled	1.38662	1
IL12-4/WTpooled	0.95636	1
IL1-4/WTpooled	1.00923	1
WT/WTpooled	1.00099	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	1.04546	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04366	0.921
DC3000/delta hrp 6h	1.30577	0.582
DC3000/delta hrp 12h	0.96556	1
DC3000/delta hrp 24h	1.64418	0.283

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98535	1
Exp 36h	0.96692	0.943
Exp 60h	0.84946	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98075	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.9477
Var 12h NI row2-row1	0.75447	0.349
Var 36h I row2-row1	0.7354
Var 36h NI row2-row1	1.40014	0.253
Var 60h I row2-row1	0.92686	0.582
Var 60h NI row2-row1	1.76897	0.904
Time course 0hI-0hNI	1.18023	0.537
Time course 12hI-12hNI	1.22461	0.385
Time course 36hI-36hNI	0.74129	0.029
Time course 60hI-60hNI	0.99941	1

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)	1.19595	0.798
transgenic ySAMdc/azygous control (breaker)	1.28258	1
transgenic ySAMdc/azygous control (red)	0.96407	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.92805	0.131

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.09448	1

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)	N/A	N/A
Manapal/WT (red)	N/A	N/A