Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.8.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25789	0.798
27DAP/17DAP	0.64972	0.105
39DAP/27DAP	0.98173	0.82
41DAP/39DAP	0.93264	0.866
42DAP/41DAP	1.13703	0.974
43DAP/42DAP	0.7257	0.7
47DAP/43DAP	1.06766	0.773
52DAP/47DAP	1.16867	0.818
57DAP/52DAP	1.72126	0.616

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.4605	0.007
17DAP/reference	2.30556	0.017
27DAP/reference	2.27308	0.011
39DAP/reference	1.2007	0.318
41DAP/reference	1.61746	0.013
42DAP/reference	1.72855	0.001
43DAP/reference	0.86841	0.077
47DAP/reference	0.75705	0.003
52DAP/reference	0.6983	0.027
57DAP/reference	0.62434	0.019

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94711	0.697
27DAP/17DAP	0.36177
39DAP/27DAP	2.14657	0.526
41DAP/39DAP	0.30007
42DAP/41DAP	1.349	0.852
43DAP/42DAP	N/A	N/A
47DAP/43DAP	1.32506	0.618
52DAP/47DAP	1.6192	0.143
57DAP/52DAP	1.62713	0.457
57DAP/7DAP	0.49553

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22011	0.157
17DAP/reference	1.13967	0.525
27DAP/reference	0.97532	0.462
39DAP/reference	0.90208	0.198
41DAP/reference	1.10371	0.241
42DAP/reference	0.96549	0.371
43DAP/reference	1.26568	0.241
47DAP/reference	1.35909	0.04
52DAP/reference	1.09634	0.062
57DAP/reference	1.2248	0.057

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8143	0.426
17DAP/reference	3.0989	0.32
27DAP/reference	0.86612	0.084
39DAP/reference	1.02227	0.745
41DAP/reference	0.82907	0.188
42DAP/reference	1.72502	0.259
43DAP/reference	1.1158	0.152
47DAP/reference	0.50126	0.092
52DAP/reference	0.78139	0.009
57DAP/reference	0.88773	0.581

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.42194	0.069
17DAP/reference	1.17265	0.321
27DAP/reference	1.17788	0.216
39DAP/reference	1.26908	0.157
41DAP/reference	1.09127	0.637
42DAP/reference	0.98764	0.816
43DAP/reference	0.96397	0.66
47DAP/reference	N/A	N/A
52DAP/reference	0.93433	0.551
57DAP/reference	1.08097

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98788	1
26DAP/20DAP	1.01832	1
34DAP/26DAP	0.59825
51DAP/34DAP	1.70215	0.034
52DAP/51DAP	0.88648	1
53DAP/52DAP	2.48268	0.413
55DAP/53DAP	1.11236	0.876
57DAP/55DAP	1.05968	0.927
62DAP/57DAP	N/A	N/A
68DAP/62DAP	4.12056	0.155
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.98382	0.591

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	N/A	N/A
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	N/A	N/A
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	0.68004	0.554
IL1-4/WTpooled	1.30066
WT/WTpooled	0.91496

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	0.94545	0.95
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	N/A	N/A

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	N/A	N/A

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	1.05585	0.98
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.51192	0.029

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	N/A	N/A