Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.10.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.27529	0.615
27DAP/17DAP	0.83305	0.583
39DAP/27DAP	1.1071	0.782
41DAP/39DAP	1.26075	0.106
42DAP/41DAP	0.83316	0.774
43DAP/42DAP	0.83372	0.598
47DAP/43DAP	1.24645	0.391
52DAP/47DAP	1.11056	0.847
57DAP/52DAP	0.85118	0.889

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06946	0.587
17DAP/reference	0.91886	0.298
27DAP/reference	1.09378	0.696
39DAP/reference	0.8629	0.106
41DAP/reference	0.8848	0.154
42DAP/reference	0.84802	0.022
43DAP/reference	0.87683	0.155
47DAP/reference	0.78821	0.006
52DAP/reference	0.91542	0.162
57DAP/reference	0.93268	0.131

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.19927	0.236
27DAP/17DAP	0.70915	0.241
39DAP/27DAP	1.10789	0.383
41DAP/39DAP	0.86869	0.434
42DAP/41DAP	1.08151	0.886
43DAP/42DAP	0.72154	0.056
47DAP/43DAP	0.84302	0.402
52DAP/47DAP	0.94939	0.834
57DAP/52DAP	0.86243	0.328
57DAP/7DAP	0.82846	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95991	0.495
17DAP/reference	1.04496	0.574
27DAP/reference	0.97628	0.53
39DAP/reference	1.09172	0.252
41DAP/reference	0.99153	0.677
42DAP/reference	1.02021	0.828
43DAP/reference	0.98745	0.58
47DAP/reference	0.90902	0.293
52DAP/reference	1.0077	1
57DAP/reference	1.11609	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13579	0.308
17DAP/reference	0.95325	0.447
27DAP/reference	1.05367	0.583
39DAP/reference	1.01702	0.745
41DAP/reference	0.88689	0.242
42DAP/reference	1.06519	0.879
43DAP/reference	0.86953	0.125
47DAP/reference	0.92776	0.168
52DAP/reference	0.70322	0.006
57DAP/reference	0.92088	0.408

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00565	0.75
17DAP/reference	1.01138	0.956
27DAP/reference	0.98962	0.691
39DAP/reference	1.04915	0.752
41DAP/reference	1.07022	0.537
42DAP/reference	0.95913	0.552
43DAP/reference	1.25273	0.06
47DAP/reference	0.74755	0.038
52DAP/reference	0.91242	0.444
57DAP/reference	1.11149	0.428

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.12546	0.916
26DAP/20DAP	1.14301	0.735
34DAP/26DAP	1.40634	1
51DAP/34DAP	0.72265	0.449
52DAP/51DAP	0.85097	1
53DAP/52DAP	1.29429	0.296
55DAP/53DAP	1.18493	0.653
57DAP/55DAP	1.31779	0.915
62DAP/57DAP	1.30821	1
68DAP/62DAP	2.76788	0.316
68DAP/14DAP	0.93192	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.10119	0.737

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	3.5426	0.028
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.78518

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	0.81752	0.358
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	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.25847	0.496
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	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.64275	0.243
IL2-6/WTpooled	0.91473	1
IL7-5/WTpooled	0.94424	1
IL7-3/WTpooled	1.02424	1
IL12-4/WTpooled	0.89981	0.71
IL1-4/WTpooled	0.95541	0.834
WT/WTpooled	0.96358	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	1.0296	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0565	0.921
DC3000/delta hrp 6h	1.12985	1
DC3000/delta hrp 12h	1.13889	1
DC3000/delta hrp 24h	0.95563	0.711

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	0.9337	1
Exp 36h	0.79451	0.661
Exp 60h	0.57859	0.278

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.14274	0.374
Var 12h I row2-row1	1.56868
Var 12h NI row2-row1	1.02551
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	0.81824	0.706
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	0.86196	0.756
Time course 0hI-0hNI	1.00888	1
Time course 12hI-12hNI	1.00888	1
Time course 36hI-36hNI	1.0321	0.68
Time course 60hI-60hNI	0.39451	0.005

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)	0.9816	0.862
transgenic ySAMdc/azygous control (breaker)	1.15386	1
transgenic ySAMdc/azygous control (red)	0.92909	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99585	0.832

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.12675	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.84673	1
Manapal/WT (break)	1.14044	1
Manapal/WT (red)	1.6153	0.413