Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.15.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.19203	0.523
27DAP/17DAP	1.99207	0.402
39DAP/27DAP	1.03467	0.798
41DAP/39DAP	1.09751	0.685
42DAP/41DAP	1.10065	0.926
43DAP/42DAP	0.85487	0.613
47DAP/43DAP	1.39653	0.234
52DAP/47DAP	1.20425	0.667
57DAP/52DAP	0.88882	0.82

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8854	0.182
17DAP/reference	0.7753	0.007
27DAP/reference	0.89218	0.114
39DAP/reference	0.97428	0.704
41DAP/reference	0.79419	0.026
42DAP/reference	1.00576	0.645
43DAP/reference	0.88054	0.071
47DAP/reference	1.04586	0.989
52DAP/reference	1.2172	0.354
57DAP/reference	1.28453	0.02

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.35015	0.042
27DAP/17DAP	1.00585	1
39DAP/27DAP	1.03498	0.728
41DAP/39DAP	0.96757	0.893
42DAP/41DAP	1.15989	0.193
43DAP/42DAP	0.90778	0.336
47DAP/43DAP	0.97145	0.833
52DAP/47DAP	1.19272	0.397
57DAP/52DAP	1.13507	0.398
57DAP/7DAP	1.28621	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9389	0.402
17DAP/reference	1.01975	1
27DAP/reference	1.41364	0.012
39DAP/reference	0.88111	0.056
41DAP/reference	0.8824	0.103
42DAP/reference	0.98456	0.371
43DAP/reference	0.90641	0.066
47DAP/reference	1.0207	1
52DAP/reference	0.87704	0.061
57DAP/reference	0.86053	0.039

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19449	0.213
17DAP/reference	1.11861	0.426
27DAP/reference	1.35472	0.072
39DAP/reference	1.23865	0.119
41DAP/reference	1.39113	0.01
42DAP/reference	1.42734	0.038
43DAP/reference	1.72177	0.036
47DAP/reference	1.41639	0.008
52DAP/reference	1.44715	0.008
57DAP/reference	1.05357	0.827

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93225	0.268
17DAP/reference	1.12161	0.641
27DAP/reference	0.95406	0.397
39DAP/reference	1.00211	0.889
41DAP/reference	1.30986	0.333
42DAP/reference	1.49024	0.042
43DAP/reference	1.27174	0.572
47DAP/reference	1.22077	0.218
52DAP/reference	1.16051	0.182
57DAP/reference	2.41912	0.009

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99522	1
26DAP/20DAP	1.33678	0.144
34DAP/26DAP	0.90758	0.693
51DAP/34DAP	0.9172	0.606
52DAP/51DAP	1.02048	0.888
53DAP/52DAP	1.00519	1
55DAP/53DAP	0.93552	0.604
57DAP/55DAP	1.38854	0.058
62DAP/57DAP	1.37189	0.133
68DAP/62DAP	1.14614	0.869
68DAP/14DAP	1.32312	0.594

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.37814	0.092

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.32826	0.058
Mature Green Tomato/Ripe Tomato	0.87743	0.446
Immature Eggplant/Mature Eggplant	0.8215	0.081
Ripe Pepper/Ripe Tomato	0.51759	0.224
Mature Eggplant/Ripe Tomato	0.2849	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.11841	0.574
1-1-2/M82	1.09693	1
12-2/M82	1.09503	0.61
12-4/M82	0.9873	1
1-3/M82	1.13682	0.479
2-1-1/M82	1.0526	0.764
2-1/M82	1.2113	0.335
2-6/M82	1.02057	1
3-2/M82	1.06716	0.549
4-1-1/M82	1.26998	1
4-1/M82	0.52726	1
4-3-2/M82	0.98055	1
4-3/M82	1.4107	0.268
5-3/M82	1.01038	1
6-2/M82	1.05725	1
6-3/M82	0.96253	1
7-1/M82	1.1241	0.598
7-2/M82	0.82895	0.599
9-3-2/M82	0.98367	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.74301	0.247
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.20445	0.426
WT/WTpooled	N/A	N/A

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	1.08773	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06742	0.921
DC3000/delta hrp 6h	0.96531	0.95
DC3000/delta hrp 12h	0.8737	1
DC3000/delta hrp 24h	0.94544	0.618

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.00879	1
DC3000 delta B/DC3000 delta AB	0.98711	0.936

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.78453	0.328
Exp 36h	1.07979	1
Exp 60h	1.09192	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99165	1
Var 0h	0.78671	0.457
Var 12h I row2-row1	1.11985	0.473
Var 12h NI row2-row1	0.95566	0.494
Var 36h I row2-row1	0.97746	0.805
Var 36h NI row2-row1	1.03874	1
Var 60h I row2-row1	0.96121	0.582
Var 60h NI row2-row1	1.18644	0.904
Time course 0hI-0hNI	0.97233	0.861
Time course 12hI-12hNI	0.96892	0.739
Time course 36hI-36hNI	0.89003	0.123
Time course 60hI-60hNI	0.96053	0.319

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)	0.79558	0.289
transgenic ySAMdc/azygous control (breaker)	1.02776	1
transgenic ySAMdc/azygous control (red)	0.99972	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98024	0.651

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.55573	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.97824	1
Manapal/WT (break)	0.90229	1
Manapal/WT (red)	1.65067	0.15