Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.11.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13759	0.67
27DAP/17DAP	1.12731	0.841
39DAP/27DAP	1.20927	0.755
41DAP/39DAP	1.22076	0.765
42DAP/41DAP	0.83934	0.774
43DAP/42DAP	0.75179	0.467
47DAP/43DAP	0.95842	0.825
52DAP/47DAP	1.34099	0.681
57DAP/52DAP	0.93251	0.779

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05814	0.252
17DAP/reference	1.13222	0.166
27DAP/reference	1.07207	0.299
39DAP/reference	1.16862	0.061
41DAP/reference	1.13243	0.043
42DAP/reference	1.02951	1
43DAP/reference	1.12636	0.133
47DAP/reference	1.02479	0.885
52DAP/reference	0.89232	0.121
57DAP/reference	0.91047	0.118

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8779	0.376
27DAP/17DAP	1.03168	1
39DAP/27DAP	1.19945	0.359
41DAP/39DAP	0.99429	1
42DAP/41DAP	1.12849	0.166
43DAP/42DAP	0.96304	0.538
47DAP/43DAP	1.10767	0.369
52DAP/47DAP	0.86743	0.382
57DAP/52DAP	0.93911	0.617
57DAP/7DAP	0.67592	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08591	0.511
17DAP/reference	1.09904	0.009
27DAP/reference	1.02013	0.197
39DAP/reference	0.86767	0.011
41DAP/reference	0.84814	0.052
42DAP/reference	0.76925	0.016
43DAP/reference	0.96439	0.385
47DAP/reference	0.9073	0.383
52DAP/reference	0.89145	0.061
57DAP/reference	0.87941	0.059

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29684	0.172
17DAP/reference	1.0902	0.851
27DAP/reference	1.07813	0.526
39DAP/reference	1.21051	0.449
41DAP/reference	0.82867	0.049
42DAP/reference	1.01225	1
43DAP/reference	1.29308	0.055
47DAP/reference	1.08197	0.176
52DAP/reference	0.94422	0.327
57DAP/reference	1.20481	0.654

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9734	0.422
17DAP/reference	1.09421	0.243
27DAP/reference	1.17745	0.031
39DAP/reference	1.12432	0.12
41DAP/reference	1.05642	0.411
42DAP/reference	1.04423	0.848
43DAP/reference	0.90892	0.319
47DAP/reference	0.95353	0.421
52DAP/reference	1.37806	0.113
57DAP/reference	1.84375	0.856

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.79722	0.708
26DAP/20DAP	1.03915	0.924
34DAP/26DAP	1.0695	0.542
51DAP/34DAP	0.9239	0.563
52DAP/51DAP	1.09828	0.446
53DAP/52DAP	0.90223	0.514
55DAP/53DAP	0.84529	0.169
57DAP/55DAP	1.09274	0.898
62DAP/57DAP	1.10013	1
68DAP/62DAP	0.69458	0.135
68DAP/14DAP	1.0967	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.93497	0.399

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.26233	0.089
Mature Green Tomato/Ripe Tomato	0.89759	0.2
Immature Eggplant/Mature Eggplant	1.59997	0.05
Ripe Pepper/Ripe Tomato	1.11791	1
Mature Eggplant/Ripe Tomato	1.04511	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.10084	0.877
1-1-2/M82	0.91907	1
12-2/M82	0.85736	0.661
12-4/M82	1.08579	0.694
1-3/M82	1.11776	1
2-1-1/M82	0.93504	0.784
2-1/M82	1.41714	1
2-6/M82	1.00111	1
3-2/M82	1.10045
4-1-1/M82	1.14313	1
4-1/M82	1.2458	0.512
4-3-2/M82	1.18968	0.284
4-3/M82	1.07062	1
5-3/M82	1.08617	0.572
6-2/M82	1.04271
6-3/M82	1.04016	1
7-1/M82	N/A	N/A
7-2/M82	1.01464	1
9-3-2/M82	1.04642	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.06743
IL2-6/WTpooled	0.62938	0.473
IL7-5/WTpooled	0.66114
IL7-3/WTpooled	0.78343	1
IL12-4/WTpooled	0.77573	0.581
IL1-4/WTpooled	0.87786	0.415
WT/WTpooled	1.01696	0.774

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	1.12565	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07356	0.692
DC3000/delta hrp 6h	0.92116	0.95
DC3000/delta hrp 12h	1.07856	1
DC3000/delta hrp 24h	1.05585	0.438

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	2.01804	0.106

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.97486	1
Exp 36h	2.01632	0.409
Exp 60h	1.87701	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03641	1
Var 0h	1.20957	0.98
Var 12h I row2-row1	1.19967	0.204
Var 12h NI row2-row1	0.9891	0.906
Var 36h I row2-row1	0.99952	1
Var 36h NI row2-row1	0.92013	0.706
Var 60h I row2-row1	0.9417	0.306
Var 60h NI row2-row1	0.90952	0.932
Time course 0hI-0hNI	1.16722	0.246
Time course 12hI-12hNI	1.41159	0.009
Time course 36hI-36hNI	2.06551	0.005
Time course 60hI-60hNI	3.64977	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)	0.87617	0.314
transgenic ySAMdc/azygous control (breaker)	1.11515	1
transgenic ySAMdc/azygous control (red)	1.07877	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04649	0.261

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.78297	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.95758	1
Manapal/WT (break)	0.63998	0.236
Manapal/WT (red)	0.94132	0.503