Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.3.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84043	0.389
27DAP/17DAP	1.87161	0.741
39DAP/27DAP	1.21509	0.995
41DAP/39DAP	1.13754	0.22
42DAP/41DAP	1.27287	0.737
43DAP/42DAP	1.05819	1
47DAP/43DAP	1.36899	0.463
52DAP/47DAP	0.95291	0.774
57DAP/52DAP	1.45138	0.76

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86511	0.073
17DAP/reference	0.78401	0.129
27DAP/reference	0.79894	0.359
39DAP/reference	0.78722	0.149
41DAP/reference	0.63625	0.085
42DAP/reference	0.88767	0.107
43DAP/reference	0.72175	0.555
47DAP/reference	1.03861	1
52DAP/reference	1.36531	0.012
57DAP/reference	1.52263

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00864	0.847
27DAP/17DAP	0.91754	0.748
39DAP/27DAP	0.79514	0.061
41DAP/39DAP	0.97061	0.973
42DAP/41DAP	1.04054	0.924
43DAP/42DAP	0.85237	0.116
47DAP/43DAP	0.99038	0.909
52DAP/47DAP	1.15871	0.58
57DAP/52DAP	1.13824	0.714
57DAP/7DAP	1.18698	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.52692	0.066
17DAP/reference	0.45609	0.011
27DAP/reference	0.51257	0.01
39DAP/reference	0.37198	0.011
41DAP/reference	0.45028	0.015
42DAP/reference	0.53266	0.013
43DAP/reference	0.48057	0.011
47DAP/reference	0.74524	0.222
52DAP/reference	0.40068	0.01
57DAP/reference	0.57499	0.011

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91088	0.374
17DAP/reference	0.84568	0.075
27DAP/reference	0.99413	0.598
39DAP/reference	1.22106	0.17
41DAP/reference	1.23289	0.015
42DAP/reference	1.10553	0.369
43DAP/reference	0.95967	0.494
47DAP/reference	0.83294	0.214
52DAP/reference	1.18649	0.444
57DAP/reference	0.82489	0.043

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.50626	0.032
17DAP/reference	0.751	0.132
27DAP/reference	0.61598	0.03
39DAP/reference	0.64986	0.022
41DAP/reference	0.54723	0.019
42DAP/reference	0.6223	0.049
43DAP/reference	0.66605	0.041
47DAP/reference	0.89123	0.199
52DAP/reference	0.62688	0.064
57DAP/reference	1.19124	0.285

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96243	1
26DAP/20DAP	N/A	N/A
34DAP/26DAP	1.19398	1
51DAP/34DAP	0.57075	0.323
52DAP/51DAP	N/A	N/A
53DAP/52DAP	1.23229	0.608
55DAP/53DAP	0.89819	0.82
57DAP/55DAP	0.73361	0.521
62DAP/57DAP	0.76651
68DAP/62DAP	0.88352	0.152
68DAP/14DAP	3.59156

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.53618	0.151

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.99954	1
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.63402
Mature Eggplant/Ripe Tomato	1.01101	1

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	1.02373	0.694
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	1.02578	0.37
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	N/A	N/A
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	1.81621	1
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	1.06507	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.2888
DC3000/delta hrp 6h	0.65285	0.95
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	1.82989	0.728

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	1.10509	1

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	N/A	N/A

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	0.99849	1
Var 12h I row2-row1	0.69159	0.363
Var 12h NI row2-row1	0.9537	0.82
Var 36h I row2-row1	0.82903	1
Var 36h NI row2-row1	1.79774	0.482
Var 60h I row2-row1	1.04651
Var 60h NI row2-row1	0.92648	0.756
Time course 0hI-0hNI	1.01088	0.867
Time course 12hI-12hNI	0.91117	0.338
Time course 36hI-36hNI	0.78021	0.023
Time course 60hI-60hNI	0.14038	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)	1.13204	0.212
transgenic ySAMdc/azygous control (breaker)	1.25345	1
transgenic ySAMdc/azygous control (red)	0.78013	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0329	0.587

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.83379	0.431

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.88844	1
Manapal/WT (break)	1.05792	1
Manapal/WT (red)	1.17742	0.142