Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.1.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08954	0.912
27DAP/17DAP	0.96787	0.973
39DAP/27DAP	3.66889	0.87
41DAP/39DAP	1.20395	0.909
42DAP/41DAP	0.80834	1
43DAP/42DAP	1.22362	0.93
47DAP/43DAP	0.62175	0.173
52DAP/47DAP	0.88578	0.677
57DAP/52DAP	0.57785	0.613

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86028	0.55
17DAP/reference	0.94362	0.63
27DAP/reference	1.14057	0.847
39DAP/reference	0.93129
41DAP/reference	1.38053	0.48
42DAP/reference	1.3126	0.004
43DAP/reference	N/A	N/A
47DAP/reference	1.15053	1
52DAP/reference	0.60633
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	N/A	N/A
27DAP/17DAP	0.39145
39DAP/27DAP	0.43097
41DAP/39DAP	0.67822
42DAP/41DAP	0.6624	0.282
43DAP/42DAP	1.18745
47DAP/43DAP	0.81064	0.032
52DAP/47DAP	0.64897	0.345
57DAP/52DAP	0.42216
57DAP/7DAP	0.33727	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.2473	0.338
17DAP/reference	1.3113	0.084
27DAP/reference	1.13459	0.551
39DAP/reference	1.00789	0.745
41DAP/reference	1.25816	0.02
42DAP/reference	1.15697	0.405
43DAP/reference	1.21843	0.364
47DAP/reference	1.07482
52DAP/reference	0.91015	0.278
57DAP/reference	0.96475	0.477

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.37983	0.524
17DAP/reference	1.46621	0.294
27DAP/reference	0.82231	0.212
39DAP/reference	0.98571
41DAP/reference	1.12432
42DAP/reference	N/A	N/A
43DAP/reference	1.02795	0.569
47DAP/reference	1.31322	0.015
52DAP/reference	1.07207	0.882
57DAP/reference	1.22233	0.119

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0893	0.864
17DAP/reference	1.10015	0.87
27DAP/reference	1.19283	0.207
39DAP/reference	0.91005	0.464
41DAP/reference	1.15701	0.174
42DAP/reference	2.21748	0.028
43DAP/reference	1.29764	0.285
47DAP/reference	0.36149	0.097
52DAP/reference	1.10861	0.826
57DAP/reference	0.81661	0.019

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.949	1
26DAP/20DAP	1.10663
34DAP/26DAP	1.02339	0.991
51DAP/34DAP	0.68514	0.305
52DAP/51DAP	1.42796
53DAP/52DAP	0.77442
55DAP/53DAP	0.86581	0.648
57DAP/55DAP	2.53992
62DAP/57DAP	0.55718
68DAP/62DAP	N/A	N/A
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.60063	0.083

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	1.12289	0.493
IL2-6/WTpooled	1.35008
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.00805	1
IL12-4/WTpooled	0.92433	0.71
IL1-4/WTpooled	1.01548	1
WT/WTpooled	1.03446	1

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	N/A	N/A
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	0.96974	1
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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.98595	1

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