Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.10.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94761	0.671
27DAP/17DAP	1.0712	1
39DAP/27DAP	1.42919	0.752
41DAP/39DAP	1.72508	0.268
42DAP/41DAP	1.11149	0.903
43DAP/42DAP	1.15412	0.867
47DAP/43DAP	0.88818	0.628
52DAP/47DAP	1.66276	0.24
57DAP/52DAP	0.92806	0.92

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87047	0.052
17DAP/reference	0.94317	0.419
27DAP/reference	0.96358	0.471
39DAP/reference	0.95674	0.487
41DAP/reference	0.83769	0.039
42DAP/reference	0.84494	0.003
43DAP/reference	0.91298	0.088
47DAP/reference	0.83827	0.021
52DAP/reference	1.08283	0.766
57DAP/reference	1.18098	0.082

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93145	0.526
27DAP/17DAP	1.03002	0.954
39DAP/27DAP	1.30101	0.15
41DAP/39DAP	1.04849	1
42DAP/41DAP	1.21985	0.365
43DAP/42DAP	1.45524	0.014
47DAP/43DAP	1.20612	0.131
52DAP/47DAP	0.77294	0.345
57DAP/52DAP	1.18268	0.244
57DAP/7DAP	1.48552	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05273	0.776
17DAP/reference	0.97311	0.447
27DAP/reference	0.95229	0.325
39DAP/reference	1.05408	0.511
41DAP/reference	1.01494	0.811
42DAP/reference	1.01656	1
43DAP/reference	0.87074	0.016
47DAP/reference	0.94463	0.383
52DAP/reference	0.849	0.077
57DAP/reference	1.00401	0.719

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94517	0.362
17DAP/reference	0.82997	0.253
27DAP/reference	0.89362	0.111
39DAP/reference	0.89065	0.129
41DAP/reference	0.94034	0.164
42DAP/reference	0.77597	0.237
43DAP/reference	0.81289	0.077
47DAP/reference	0.90076	0.06
52DAP/reference	0.85237	0.078
57DAP/reference	0.79576	0.079

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96573	0.526
17DAP/reference	0.94833	0.47
27DAP/reference	1.07131	0.149
39DAP/reference	0.97543	0.43
41DAP/reference	0.99995	0.826
42DAP/reference	0.9754	0.671
43DAP/reference	0.91287	0.237
47DAP/reference	0.90034	0.072
52DAP/reference	0.90993	0.256
57DAP/reference	1.16849	0.171

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11139	1
26DAP/20DAP	1.14771	0.481
34DAP/26DAP	1.05097	1
51DAP/34DAP	0.94346	0.791
52DAP/51DAP	0.90171	1
53DAP/52DAP	2.44572	0.022
55DAP/53DAP	0.79645	0.072
57DAP/55DAP	0.83087	0.423
62DAP/57DAP	2.87608	0.868
68DAP/62DAP	1.40266	0.582
68DAP/14DAP	1.2447	0.403

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.33534	0.038

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.08465	0.033
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	2.27415

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.28369
12-2/M82	N/A	N/A
12-4/M82	1.00324	1
1-3/M82	N/A	N/A
2-1-1/M82	1.07977
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.94235
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	1.18496	0.284
4-3/M82	N/A	N/A
5-3/M82	1.1235	0.572
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.96656
7-2/M82	N/A	N/A
9-3-2/M82	1.21693	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.2402	0.419
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.91957	1
IL12-4/WTpooled	0.7956	0.581
IL1-4/WTpooled	0.99291	1
WT/WTpooled	1.07872	0.874

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	1.49743	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92481	1
DC3000/delta hrp 6h	0.82303	0.95
DC3000/delta hrp 12h	1.06942	1
DC3000/delta hrp 24h	1.18954	0.347

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	1.17626	0.437

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	0.99689	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99032	1
Var 0h	1.00776	1
Var 12h I row2-row1	0.88971	0.39
Var 12h NI row2-row1	1.10688	0.649
Var 36h I row2-row1	1.09744	1
Var 36h NI row2-row1	0.91135	0.743
Var 60h I row2-row1	0.88365	0.582
Var 60h NI row2-row1	0.82449	0.572
Time course 0hI-0hNI	1.00977	1
Time course 12hI-12hNI	1.07016	0.347
Time course 36hI-36hNI	1.45435	0.006
Time course 60hI-60hNI	3.45476	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)	1.08679	0.321
transgenic ySAMdc/azygous control (breaker)	1.54615	0.172
transgenic ySAMdc/azygous control (red)	0.95491	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99752	0.858

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.01105	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.36362	1
Manapal/WT (break)	1.2121	0.183
Manapal/WT (red)	0.92786	0.242