Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.4.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96992	0.779
27DAP/17DAP	1.01062	1
39DAP/27DAP	0.92982
41DAP/39DAP	1.21734	0.642
42DAP/41DAP	1.09297	0.916
43DAP/42DAP	0.9832	0.925
47DAP/43DAP	1.08649	0.469
52DAP/47DAP	1.14871	0.757
57DAP/52DAP	1.52562	0.64

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78239	0.077
17DAP/reference	0.80385	0.24
27DAP/reference	0.58569	0.026
39DAP/reference	0.50482	0.009
41DAP/reference	0.36603	0.008
42DAP/reference	0.72861	0.017
43DAP/reference	0.57137
47DAP/reference	0.84499	0.019
52DAP/reference	0.68396	0.036
57DAP/reference	1.06551

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07206	0.774
27DAP/17DAP	0.95324	0.821
39DAP/27DAP	1.0581	0.691
41DAP/39DAP	0.86686	0.645
42DAP/41DAP	1.08849	0.927
43DAP/42DAP	1.10128	0.627
47DAP/43DAP	1.01879	1
52DAP/47DAP	0.9548	0.876
57DAP/52DAP	0.80211	0.263
57DAP/7DAP	0.92936	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.089	0.263
17DAP/reference	1.33181	0.023
27DAP/reference	1.28265	0.035
39DAP/reference	1.31054	0.011
41DAP/reference	1.68196	0.009
42DAP/reference	1.20019	0.021
43DAP/reference	1.11114	0.325
47DAP/reference	1.14617	0.065
52DAP/reference	1.2328	0.052
57DAP/reference	1.05796	0.356

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77326	0.049
17DAP/reference	0.63871	0.014
27DAP/reference	0.90317	0.173
39DAP/reference	0.97622	0.554
41DAP/reference	0.82165	0.152
42DAP/reference	0.99873	0.594
43DAP/reference	0.83211	0.162
47DAP/reference	0.68877	0.009
52DAP/reference	0.64063	0.014
57DAP/reference	0.69661	0.107

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	6.00698	0.033
17DAP/reference	0.94871	0.528
27DAP/reference	1.67954	0.143
39DAP/reference	1.04238	0.792
41DAP/reference	1.23868	0.086
42DAP/reference	7.18092	0.011
43DAP/reference	4.34959	0.01
47DAP/reference	0.83262	0.034
52DAP/reference	4.19158	0.061
57DAP/reference	1.10935	0.378

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97679	1
26DAP/20DAP	0.72114	0.512
34DAP/26DAP	1.01867	1
51DAP/34DAP	1.04826	0.96
52DAP/51DAP	0.82128	1
53DAP/52DAP	1.04068	0.935
55DAP/53DAP	1.0625	0.885
57DAP/55DAP	1.46612	0.826
62DAP/57DAP	0.27397
68DAP/62DAP	1.33492	0.422
68DAP/14DAP	2.1462	0.039

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.66006	0.045

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.85511	0.351
Mature Green Tomato/Ripe Tomato	0.93992	0.569
Immature Eggplant/Mature Eggplant	1.37112	0.07
Ripe Pepper/Ripe Tomato	0.64969	0.224
Mature Eggplant/Ripe Tomato	0.68581	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.19122	0.526
1-1-2/M82	1.39023
12-2/M82	N/A	N/A
12-4/M82	1.06726	1
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	1.60898
4-3/M82	1.50234	1
5-3/M82	1.08801	1
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	0.86699	1
IL7-5/WTpooled	1.296	0.792
IL7-3/WTpooled	0.94475	1
IL12-4/WTpooled	0.98194	1
IL1-4/WTpooled	0.93946	0.476
WT/WTpooled	0.97516

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	1.04235	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.6764	0.868
DC3000/delta hrp 6h	0.92341	0.95
DC3000/delta hrp 12h	1.11621
DC3000/delta hrp 24h	0.98111	0.794

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	1.15113

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.08571	1
Exp 36h	1.11874	1
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	1.02556	1
Var 0h	0.54749	0.594
Var 12h I row2-row1	0.95522
Var 12h NI row2-row1	0.99481	1
Var 36h I row2-row1	1.13415	0.742
Var 36h NI row2-row1	1.16208	1
Var 60h I row2-row1	0.66166
Var 60h NI row2-row1	0.90074	0.431
Time course 0hI-0hNI	0.96185	0.858
Time course 12hI-12hNI	0.97807	0.874
Time course 36hI-36hNI	1.07955	0.166
Time course 60hI-60hNI	1.4444	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)	0.94945	0.301
transgenic ySAMdc/azygous control (breaker)	1.20548	0.178
transgenic ySAMdc/azygous control (red)	1.10385	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.91292	0.085

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)	1.09528	1
Manapal/WT (break)	0.94495	1
Manapal/WT (red)	1.30215	1