Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.16.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1417	0.588
27DAP/17DAP	0.89648	0.766
39DAP/27DAP	1.24946	0.553
41DAP/39DAP	0.61855	0.061
42DAP/41DAP	0.87123	1
43DAP/42DAP	0.84918	0.708
47DAP/43DAP	1.66835	0.201
52DAP/47DAP	1.12514	0.913
57DAP/52DAP	0.98367	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09175	0.334
17DAP/reference	0.74406	0.013
27DAP/reference	1.05403	0.599
39DAP/reference	1.05645	0.524
41DAP/reference	1.01497	1
42DAP/reference	1.10039	0.043
43DAP/reference	1.05121	0.547
47DAP/reference	1.22839	0.002
52DAP/reference	1.12452	0.217
57DAP/reference	1.2783	0.01

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.80192	0.277
27DAP/17DAP	0.91346	0.724
39DAP/27DAP	1.15631	0.548
41DAP/39DAP	2.46622	0.007
42DAP/41DAP	0.57905	0.015
43DAP/42DAP	1.07195	0.746
47DAP/43DAP	1.5197	0.087
52DAP/47DAP	1.17316	0.543
57DAP/52DAP	1.20929	0.5
57DAP/7DAP	1.18016	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02011	1
17DAP/reference	0.86556	0.012
27DAP/reference	0.8882	0.019
39DAP/reference	0.91008	0.039
41DAP/reference	0.94167	0.133
42DAP/reference	1.05636	0.686
43DAP/reference	1.22926	0.053
47DAP/reference	1.10675	0.395
52DAP/reference	0.99872	0.802
57DAP/reference	1.09414	0.214

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98944	0.831
17DAP/reference	1.02093	0.873
27DAP/reference	1.129	0.2
39DAP/reference	1.21969	0.03
41DAP/reference	1.21642	0.028
42DAP/reference	1.34196	0.019
43DAP/reference	0.99566	0.761
47DAP/reference	1.1082	0.089
52DAP/reference	1.10452	0.181
57DAP/reference	0.86518	0.208

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91108	0.119
17DAP/reference	1.03163	0.912
27DAP/reference	1.00799	1
39DAP/reference	0.95818	0.299
41DAP/reference	1.08032	1
42DAP/reference	0.84884	0.22
43DAP/reference	1.0946	0.7
47DAP/reference	1.44362	0.007
52DAP/reference	1.18686	0.509
57DAP/reference	1.59012	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.15763	0.916
26DAP/20DAP	0.6894	0.146
34DAP/26DAP	1.14517	1
51DAP/34DAP	0.7748	0.209
52DAP/51DAP	1.02457	0.954
53DAP/52DAP	1.31236	0.356
55DAP/53DAP	1.08453	0.964
57DAP/55DAP	1.02919	1
62DAP/57DAP	1.05044	0.935
68DAP/62DAP	1.47109	0.392
68DAP/14DAP	1.48818	0.103

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.48448	0.017

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.03291	0.666
Mature Green Tomato/Ripe Tomato	0.48226	0.018
Immature Eggplant/Mature Eggplant	0.66654	0.062
Ripe Pepper/Ripe Tomato	0.70407	0.224
Mature Eggplant/Ripe Tomato	0.44453

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.12906
12-2/M82	N/A	N/A
12-4/M82	1.56102
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	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.85638
4-3-2/M82	1.67485	0.508
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	1.56391
7-2/M82	N/A	N/A
9-3-2/M82	1.6235	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.21126	0.456
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.96628	1
IL12-4/WTpooled	1.2591	0.557
IL1-4/WTpooled	1.25062
WT/WTpooled	1.06305	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	1.98028	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	0.96687	0.95
DC3000/delta hrp 12h	1.00423	1
DC3000/delta hrp 24h	1.75937	0.383

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	2.31918	0.042
DC3000 delta B/DC3000 delta AB	1.54094	0.081

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.29055	1
Exp 36h	1.27607	0.489
Exp 60h	1.09494	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0692	1
Var 0h	1.08829	0.782
Var 12h I row2-row1	0.86757	0.705
Var 12h NI row2-row1	1.43352	0.281
Var 36h I row2-row1	1.24188	0.339
Var 36h NI row2-row1	0.60556	0.413
Var 60h I row2-row1	1.09211	1
Var 60h NI row2-row1	0.62889	0.408
Time course 0hI-0hNI	0.91319	0.852
Time course 12hI-12hNI	1.2559	0.287
Time course 36hI-36hNI	4.81337	0.004
Time course 60hI-60hNI	6.53868	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)	0.8487	0.246
transgenic ySAMdc/azygous control (breaker)	1.1055	0.248
transgenic ySAMdc/azygous control (red)	1.09981	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02528	0.421

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.5766	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.85069	0.172
Manapal/WT (break)	1.02892	1
Manapal/WT (red)	N/A	N/A