Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.18.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.28069	0.725
27DAP/17DAP	0.90891	0.913
39DAP/27DAP	1.61284	0.566
41DAP/39DAP	1.32183	0.642
42DAP/41DAP	1.11095	1
43DAP/42DAP	1.16572	0.968
47DAP/43DAP	1.15989	0.776
52DAP/47DAP	1.08148	0.879
57DAP/52DAP	1.4505	0.873

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86474	0.075
17DAP/reference	0.861	0.06
27DAP/reference	1.01073	0.923
39DAP/reference	0.97286	0.638
41DAP/reference	0.76414	0.114
42DAP/reference	0.94329	0.085
43DAP/reference	0.995	0.861
47DAP/reference	0.99914	0.674
52DAP/reference	1.00828	0.749
57DAP/reference	1.05632	0.392

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93079	0.47
27DAP/17DAP	1.07577	0.794
39DAP/27DAP	1.11391	0.471
41DAP/39DAP	1.29514	0.705
42DAP/41DAP	1.0174	0.907
43DAP/42DAP	1.0428	0.699
47DAP/43DAP	1.05522	0.844
52DAP/47DAP	1.00929	0.982
57DAP/52DAP	0.9869	0.784
57DAP/7DAP	0.91079	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22636	0.129
17DAP/reference	1.60702	0.011
27DAP/reference	1.63969	0.009
39DAP/reference	1.50492	0.01
41DAP/reference	1.47411	0.086
42DAP/reference	1.81236	0.014
43DAP/reference	1.72486	0.007
47DAP/reference	1.30322	0.318
52DAP/reference	1.39503	0.019
57DAP/reference	1.62505	0.031

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9767	0.655
17DAP/reference	0.93687	0.223
27DAP/reference	0.83489	0.071
39DAP/reference	0.90343	0.119
41DAP/reference	0.98686	0.493
42DAP/reference	0.94993	0.392
43DAP/reference	0.88869	0.298
47DAP/reference	0.92942	0.164
52DAP/reference	1.00836	0.938
57DAP/reference	0.97791	0.61

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30908	0.034
17DAP/reference	1.31729	0.496
27DAP/reference	1.9098	0.02
39DAP/reference	1.6181	0.016
41DAP/reference	1.44076	0.027
42DAP/reference	1.17916	0.47
43DAP/reference	1.55635	0.121
47DAP/reference	1.03035	0.63
52DAP/reference	1.56142	0.176
57DAP/reference	1.03194	0.672

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.16296	0.966
26DAP/20DAP	0.9565	1
34DAP/26DAP	1.16423	1
51DAP/34DAP	1.04355	0.978
52DAP/51DAP	0.98525	1
53DAP/52DAP	1.10295	0.489
55DAP/53DAP	1.12011	0.422
57DAP/55DAP	1.21532	0.393
62DAP/57DAP	0.94597	0.871
68DAP/62DAP	0.9358	0.722
68DAP/14DAP	1.10983	0.594

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.6643	0.028

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.35372
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

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	N/A	N/A
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	0.93345
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.87256
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	0.89918
IL1-4/WTpooled	N/A	N/A
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	0.55983

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91322	1
DC3000/delta hrp 6h	0.89168
DC3000/delta hrp 12h	1.06693	1
DC3000/delta hrp 24h	1.03623	1

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	1.6344	0.133

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	0.98898	1
Var 0h	1.72811	0.936
Var 12h I row2-row1	1.15241	0.406
Var 12h NI row2-row1	0.98143	0.82
Var 36h I row2-row1	0.78432	1
Var 36h NI row2-row1	0.93262	0.743
Var 60h I row2-row1	1.12287	0.562
Var 60h NI row2-row1	0.92308	0.904
Time course 0hI-0hNI	0.99862	1
Time course 12hI-12hNI	0.91338	0.303
Time course 36hI-36hNI	1.02889	0.975
Time course 60hI-60hNI	0.96693	0.646

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)	0.65486	0.314
transgenic ySAMdc/azygous control (breaker)	1.0067	1
transgenic ySAMdc/azygous control (red)	1.06291	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96141	0.083

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.49293	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.17886	0.14
Manapal/WT (break)	0.82491	1
Manapal/WT (red)	1.19812	0.137